ID GQ287376; SV 1; linear; genomic RNA; STD; VRL; 1163 BP. XX AC GQ287376; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1163 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1163 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5f850a7e3d34983876e9092078542d28. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1163 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1163 FT /gene="pol" FT CDS <1..>1163 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWV0" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWV0" FT /protein_id="ACU68388.1" FT /translation="ARELPSKQARANSPTSRELQVWGRDNTSLSEAGSDRLRQGTVSSF FT SFPQITLWQRPLVEVKVGGQLKEALLDTGADDTVLEDMPLPGRWKPKMIGGIGGFIKVR FT QYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETVPVKLKPGMD FT GPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVD FT FRELNKKTQDFWEVQLGIPHPSGLRKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSM FT NNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGSDLE FT IGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..183 FT /gene="gag" FT CDS <1..183 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWV1" FT /protein_id="ACU68387.1" FT /translation="RPGNFLQSRPEPTAPPAESFRFGEETTPPSQKQDLIDLDKELYPP FT LASLRSLFGNDPSSK" XX SQ Sequence 1163 BP; 435 A; 210 C; 247 G; 271 T; 0 other; aggccaggga acttccttca aagcaggcca gagccaacag ccccaccagc agagagcttc 60 aggtttgggg aagagacaac acctccctct cagaagcagg atctgataga cttagacaag 120 gaactgtatc ctcctttagc ttccctcaga tcactctttg gcaacgaccc ctcgtcgaag 180 taaaggtagg ggggcaacta aaggaagctc tattagatac aggagcagat gatacagtat 240 tagaagacat gcctttgcca ggaagatgga aaccaaaaat gataggggga attggaggct 300 ttatcaaagt aagacagtat gatcagatac ccatagaaat ctgtggacat aaagctatag 360 gtacagtatt agtaggacct acacctgtca acataattgg aagaaatctg ttgactcaaa 420 ttggttgcac tttaaatttt cccattagtc ctattgaaac tgtaccagta aaattaaagc 480 caggaatgga tggcccaaaa gttaaacaat ggccattgac agaagaaaaa ataaaagcat 540 taatagaaat ctgtacagaa atggaaaagg aagggaaaat ttcaaaaatt gggcctgaaa 600 atccatacaa tactccagtg tttgccataa agaaaaaaga cagtacgaaa tggagaaaat 660 tagtagattt cagagaactt aataagaaaa ctcaagactt ttgggaagtt cagttaggaa 720 taccacatcc ttcagggtta agaaagaaaa aatcagtaac agtactggat gtgggtgatg 780 catatttttc agttccctta gataaagaat tcaggaagta tactgcattt accataccta 840 gtatgaacaa tgcaacacca gggattagat atcagtacaa tgtgcttcca cagggatgga 900 aaggatcacc agcaatattc caaagtagca tgacaaaaat cttagagcct tttagaaaac 960 aaaatccaga catagttatc tatcaataca tggatgattt gtatgtagga tctgacttag 1020 aaatagggca acatagagca aagatagagg aactgagaca acatctgttt aagtgggggt 1080 ttaccacacc agacaaaaaa catcagaaag agcctccatt cctttggatg ggttatgaac 1140 tccatcctga taaatggaca gta 1163 // ID GQ287377; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287377; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b1f9272fa0474254cab4b69ce88e9b7b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWV2" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWV2" FT /protein_id="ACU68390.1" FT /translation="ARELSSEQARANSSTEQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKVGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWV3" FT /protein_id="ACU68389.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 449 A; 217 C; 249 G; 275 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ctccacagag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa aggtaggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagggcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287378; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287378; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c1886b18be5c40362baab8d27e2e0002. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWV4" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWV4" FT /protein_id="ACU68392.1" FT /translation="ARELSSEQARANSPTEQARANSPARRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKVGGQLREALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSMNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWV5" FT /protein_id="ACU68391.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPEESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 449 A; 217 C; 250 G; 274 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagaaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa aggtaggggg gcaactaagg gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagta tgaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287379; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287379; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; af6547b986fe7068116d77e9c4318f7d. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWV6" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWV6" FT /protein_id="ACU68394.1" FT /translation="ARELSSEQARANSPTEQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLRKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWV7" FT /protein_id="ACU68393.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 448 A; 220 C; 250 G; 272 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaactcaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaga aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caagaaacat cagaaagaac 1140 ctccattcct ctggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287380; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287380; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 15b5f29f083478a68064aa1d0d9c9a4d. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWV8" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWV8" FT /protein_id="ACU68396.1" FT /translation="ARELSSEQARANSPTEQARANSPASGELQVRGRDNTSLSEAGSDR FT FGQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVKQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIVQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWV9" FT /protein_id="ACU68395.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 446 A; 218 C; 251 G; 275 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagcgga gagcttcagg ttcggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagattt ggacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaaa acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaagata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtgttt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt acttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagtgcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287381; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287381; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5f3c9fdae3fde87341cee57e0e9d0b30. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWW0" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWW0" FT /protein_id="ACU68398.1" FT /translation="ARELPSEQARANSPTKQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIDQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWW1" FT /protein_id="ACU68397.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 449 A; 220 C; 248 G; 273 T; 0 other; aggccaggga acttccttca gagcaggcca gagccaacag ccccacaaag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtgttt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagaccaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa gtggacagta 1190 // ID GQ287382; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287382; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-19 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ddb8489b4c6de980f8520f1dd2a05d65. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-19" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWW2" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWW2" FT /protein_id="ACU68400.1" FT /translation="ARELPSEQARANSPTEQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKRTQDFWEVQLGIPHPSGLRKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSMNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWW3" FT /protein_id="ACU68399.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 450 A; 219 C; 248 G; 273 T; 0 other; aggccaggga acttccttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttaccagga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aaaagaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaga aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagta tgaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287383; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287383; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-20 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4f281618e6642f1169c2ece7bc7d658e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-20" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWW4" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWW4" FT /protein_id="ACU68402.1" FT /translation="ARELPSEQARANSPTKQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPIFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIVQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWW5" FT /protein_id="ACU68401.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 450 A; 221 C; 246 G; 273 T; 0 other; aggccaggga acttccttca gagcaggcca gagccaacag ccccacaaag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtcttaat aggacctaca cctgtcaaca 420 taattggaag aaacctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cgttgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccaatattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt acttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagtgcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287384; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287384; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-2 from USA pol protein (pol) gene, partial cds; DE and nonfunctional gag protein (gag) gene, partial sequence. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4345fbc0ed2c91ff6ea09898d0ec1874. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWW6" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWW6" FT /protein_id="ACU68403.1" FT /translation="ARELSLEQARANSPTEQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKVGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPNIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT misc_feature <1..210 FT /gene="gag" FT /note="nonfunctional gag protein due to mutation" XX SQ Sequence 1190 BP; 448 A; 217 C; 250 G; 275 T; 0 other; aggccaggga actttcttta gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa aggtaggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccta 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagtccag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacgccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccaaacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287385; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287385; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-10 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c615b76258431134dcb5a3c50ff11b0d. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWW7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWW7" FT /protein_id="ACU68405.1" FT /translation="ARELSSEQARANSPTEQARANSPARGELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKVGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSMNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWW8" FT /protein_id="ACU68404.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPEESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 448 A; 217 C; 251 G; 274 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagagga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa aggtaggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag ggaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagta tgaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287386; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287386; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 777795bdb1242c600fbcc9b2e352a13e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWW9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWW9" FT /protein_id="ACU68407.1" FT /translation="ARELSSEQARANSPTEQARANSPARRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWX0" FT /protein_id="ACU68406.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPEESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 451 A; 217 C; 248 G; 274 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagaaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat caaataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgta ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagggcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287387; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287387; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5294b77fb56e4358e2f928dbb859bca0. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWX1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWX1" FT /protein_id="ACU68409.1" FT /translation="ARELSSEQARANSPTEQARTNGPASRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWX2" FT /protein_id="ACU68408.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 449 A; 218 C; 250 G; 273 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagaa 60 ccaacggccc cgccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gcaataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag ggaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287388; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287388; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 1e446324bd16bcfbf3aea6654ce6789b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWX3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWX3" FT /protein_id="ACU68411.1" FT /translation="ARELPSEQARANGPTEQARANSPAGRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLRKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWX4" FT /protein_id="ACU68410.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 445 A; 220 C; 254 G; 271 T; 0 other; aggccaggga acttccttca gagcaggcca gagccaacgg ccccacagag caggccagag 60 ccaacagccc cgccggcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaatcggg cctgaaaatc catacaatac tccagtgttt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaga aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagggcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atccggataa atggacagta 1190 // ID GQ287389; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287389; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-23 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 1af313e05a0e8fd537b7b0aedf05143c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-23" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWX5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWX5" FT /protein_id="ACU68413.1" FT /translation="ARELPSEQARANSPTKQARANSPASRELQVRGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSMNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWX6" FT /protein_id="ACU68412.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 447 A; 221 C; 250 G; 272 T; 0 other; aggccaggga acttccttca gagcaggcca gagccaacag ccccacaaag caggccagag 60 ccaacagccc cgccagcaga gagcttcagg ttcggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccggga agatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtcttaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaagttag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagta tgaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287390; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287390; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 1174e1acb181faa241b3d43449926b72. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWX7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWX7" FT /protein_id="ACU68415.1" FT /translation="ARELSSEQARANSPTEQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLIGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWX8" FT /protein_id="ACU68414.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 451 A; 219 C; 247 G; 273 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattaat aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaatcggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaagttag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt acttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287391; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287391; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 927527831fad05719e7cb65a495b7ff5. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWX9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWX9" FT /protein_id="ACU68417.1" FT /translation="ARELSSEQARANSPTEQARANSPARRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWY0" FT /protein_id="ACU68416.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPEESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 450 A; 218 C; 251 G; 271 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagaaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg ggtgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaataggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaagttag tagatttcag agaacttaat aagaaaaccc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287392; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287392; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-11 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 40125c248e6da65a49f0a0360db1fccf. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-11" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWY1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWY1" FT /protein_id="ACU68419.1" FT /translation="ARELSSEQARANSPTEQARANSPARRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKVGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWY2" FT /protein_id="ACU68418.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPEESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 448 A; 217 C; 251 G; 274 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagaaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa aggtaggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aagcaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagggcaaca tagagcaaaa atagaggaac 1080 tgagacaaca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287393; SV 1; linear; genomic RNA; STD; VRL; 1163 BP. XX AC GQ287393; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-21 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1163 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1163 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; f98e643e2a9effbae726237187f10cdc. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1163 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-21" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1163 FT /gene="pol" FT CDS <1..>1163 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWY3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWY3" FT /protein_id="ACU68421.1" FT /translation="ARELPSKQARANSPAGRELQVWGRDNTSLSEAGSDRLRQGTVSSF FT SFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGRWKPKMIGGIGGFIKVR FT QYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETVPVKLKPGMD FT GPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVD FT FRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSM FT NNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDDLYVGSDLE FT IGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..183 FT /gene="gag" FT CDS <1..183 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWY4" FT /protein_id="ACU68420.1" FT /translation="RPGNFLQSRPEPTAPPAESFRFGEETTPPSQKQDLIDLDKELYPP FT LASLRSLFGNDPSSK" XX SQ Sequence 1163 BP; 438 A; 208 C; 244 G; 273 T; 0 other; aggccaggga acttccttca aagcaggcca gagccaacag ccccgccggc agagagcttc 60 aggtttgggg aagagacaac acctccctct cagaagcagg atctgataga cttagacaag 120 gaactgtatc ctcctttagc ttccctcaga tcactctttg gcaacgaccc ctcgtcgaag 180 taaagatagg ggggcaacta aaggaagctc tattagatac aggagcagat gatacagtat 240 tagaagacat gcatttgcca ggaagatgga aaccaaaaat gataggggga attggaggct 300 ttatcaaagt aagacagtat gatcagatac ccatagaaat ctgtggacat aaagctatag 360 gtacagtatt agtaggacct acacctgtca acataattgg aagaaatctg ttgactcaaa 420 ttggttgcac tttaaatttt cccattagtc ctattgaaac tgtaccagta aaattaaagc 480 caggaatgga tggcccaaaa gttaaacaat ggccattgac agaagaaaaa ataaaagcat 540 taatagaaat ttgtacagaa atggaaaagg aagggaaaat ttcaaaaatt gggcctgaaa 600 atccatacaa tactccagta tttgccataa agaaaaaaga cagtactaaa tggagaaaat 660 tagtagattt cagagaactt aataagaaaa ctcaagactt ttgggaagtt cagttaggaa 720 taccacatcc ttcagggtta aaaaagaaaa aatcagtaac agtactggat gtgggtgatg 780 catatttttc agttccctta gataaagaat tcaggaagta tactgcattt accataccta 840 gtatgaacaa tgcaacacca gggattagat atcagtacaa tgtgcttcca cagggatgga 900 aaggatcacc agcaatattc caaagtagca tgacaaaaat cttagagcct tttagaaaac 960 aaaatccaga catagttatc tatcaataca tggatgattt gtatgtagga tctgacttag 1020 aaatagggca acatagagca aaaatagagg aactgagaca gcatctgttt aagtgggggt 1080 ttaccacacc agacaaaaaa catcagaaag aacctccatt cctttggatg ggttatgaac 1140 tccatcctga taaatggaca gta 1163 // ID GQ287394; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287394; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-14 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d07aea6a21c24a2e3507ab847afafffd. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-14" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWY5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWY5" FT /protein_id="ACU68423.1" FT /translation="ARKLSSEQARANSPTKQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLRKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSMNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWY6" FT /protein_id="ACU68422.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 450 A; 217 C; 250 G; 273 T; 0 other; aggccaggaa actttcttca gagcaggcca gagccaacag ccccacaaag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccaa 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtgttt gccataaaga 660 aaaaagacag tacgaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaga aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagta tgaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagggcaaca tagagcaaaa atagaggaac 1080 tgagacaaca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaggaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287395; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287395; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 83bbf754baa266f96d7d7c0ca35ae8f5. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWY7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWY7" FT /protein_id="ACU68425.1" FT /translation="ARELPSEQARANSPTKQARANSPTSRELQVWGRDITSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKVGGQLREALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLRKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWY8" FT /protein_id="ACU68424.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETSPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 447 A; 219 C; 251 G; 273 T; 0 other; aggccaggga acttccttca gagcaggcca gagccaacag ccccacaaag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacatcacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa aggtaggggg gcaactaagg gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaaaatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtgttt gccataaaga 660 aaaaagacag tacgaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc aggattaaga aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287396; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287396; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 44bec89619129afa6b0b0f8d753f2e1e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWY9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWY9" FT /protein_id="ACU68427.1" FT /translation="ARELSSEQARANSPTEQARANSPASRELQIWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEEMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSMNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIEQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWZ0" FT /protein_id="ACU68426.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 450 A; 219 C; 249 G; 272 T; 0 other; aggccaggga actttcttca gagcaggcca gagccaacag ccccacagag caggccagag 60 ccaacagccc cgccagcaga gagcttcaga tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaaa gaagctctat 240 tagatacagg agcagatgat acagtattag aagaaatgca tttgccagga aaatggaaac 300 caaagatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagatttcag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccctagat aaagaattca 840 ggaagtatac tgcatttacc atacctagta tgaacaacgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaagatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagagcaaca tagagcaaaa atagaggaac 1080 tgagacagca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287397; SV 1; linear; genomic RNA; STD; VRL; 1190 BP. XX AC GQ287397; XX DT 27-AUG-2009 (Rel. 101, Created) DT 27-AUG-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3024_082702p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1190 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1190 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (16-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d6ba20b201ad9d940f7118f1169dddc2. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1190 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3024_082702p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Aug-2002" FT /db_xref="taxon:11676" FT gene <1..>1190 FT /gene="pol" FT CDS <1..>1190 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C8BWZ1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C8BWZ1" FT /protein_id="ACU68429.1" FT /translation="ARELPSKQARANSPTKQARANSPTSRELQVWGRDNTSLSEAGSDR FT LRQGTVSSFSFPQITLWQRPLVEVKIGGQLKEALLDTGADDTVLEDMHLPGKWKPKMIG FT GIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFPISPIETV FT PVKLKPGMDGPKVKQWPLTEEKIKALIEICTEMEKEGKISKIGPENPYNTPVFAIKKKD FT STKWRKLVDFRELNKKTQDFWEVQLGIPHPSGLKKKKSVTVLDVGDAYFSVPLDKEFRK FT YTAFTIPSVNNATPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMD FT DLYVGSDLEIGQHRAKIEELRQHLFKWGFTTPDKKHQKEPPFLWMGYELHPDKWTV" FT gene <1..210 FT /gene="gag" FT CDS <1..210 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C8BWZ2" FT /protein_id="ACU68428.1" FT /translation="RPGNFLQSRPEPTAPQSRPEPTAPPAESFRFGEETTPPSQKQDLI FT DLDKELYPPLASLRSLFGNDPSSK" XX SQ Sequence 1190 BP; 450 A; 218 C; 248 G; 274 T; 0 other; aggccaggga acttccttca aagcaggcca gagccaacag ccccacaaag caggccagag 60 ccaacagccc caccagcaga gagcttcagg tttggggaag agacaacacc tccctctcag 120 aagcaggatc tgatagactt agacaaggaa ctgtatcctc ctttagcttc cctcagatca 180 ctctttggca acgacccctc gtcgaagtaa agataggggg gcaactaaag gaagctctat 240 tagatacagg agcagatgat acagtattag aagacatgca tttgccagga aaatggaaac 300 caaagatgat agggggaatt ggaggcttta tcaaagtaag acagtatgat cagataccca 360 tagaaatctg tggacataaa gctataggta cagtattagt aggacctaca cctgtcaaca 420 taattggaag aaatctgttg actcaaattg gttgcacttt aaattttccc attagtccta 480 ttgaaactgt accagtaaaa ttaaagccag gaatggatgg cccaaaagtt aaacaatggc 540 cattgacaga agaaaaaata aaagcattaa tagaaatttg tacagaaatg gaaaaggaag 600 ggaaaatttc aaaaattggg cctgaaaatc catacaatac tccagtattt gccataaaga 660 aaaaagacag tactaaatgg agaaaattag tagattttag agaacttaat aagaaaactc 720 aagacttttg ggaagttcag ttaggaatac cacatccttc agggttaaaa aagaaaaaat 780 cagtaacagt actggatgtg ggtgatgcat atttttcagt tcccttagat aaagaattca 840 ggaagtatac tgcatttacc atacctagtg taaacaatgc aacaccaggg attagatatc 900 agtacaatgt gcttccacag ggatggaaag gatcaccagc aatattccaa agtagcatga 960 caaaaatctt agagcctttt agaaaacaaa atccagacat agttatctat caatacatgg 1020 atgatttgta tgtaggatct gacttagaaa tagggcaaca tagagcaaag atagaggaac 1080 tgagacaaca tctgtttaag tgggggttta ccacaccaga caaaaaacat cagaaagaac 1140 ctccattcct ttggatgggt tatgaactcc atcctgataa atggacagta 1190 // ID GQ287619; SV 1; linear; viral cRNA; STD; VRL; 1701 BP. XX AC GQ287619; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Fukuoka-C/1/2009(H1N1)) segment 4 hemagglutinin (HA) DE gene, complete cds. XX KW . XX OS Influenza A virus (A/Fukuoka-C/1/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1701 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; 0fe4fd527232a8f4d127a63e74c59d35. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1701 FT /organism="Influenza A virus (A/Fukuoka-C/1/2009(H1N1))" FT /segment="4" FT /host="Homo sapiens" FT /strain="A/Fukuoka-C/1/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="07-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653949" FT gene 1..1701 FT /gene="HA" FT CDS 1..1701 FT /codon_start=1 FT /gene="HA" FT /product="hemagglutinin" FT /db_xref="GOA:C6KMU4" FT /db_xref="InterPro:IPR000149" FT /db_xref="InterPro:IPR001364" FT /db_xref="InterPro:IPR008980" FT /db_xref="InterPro:IPR013828" FT /db_xref="UniProtKB/TrEMBL:C6KMU4" FT /protein_id="ACS54259.1" FT /translation="MKAILVVLLYTFATANADTLCIGYHANNSTDTVDTVLEKNVTVTH FT SVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETPSSDN FT GTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYK FT NLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADTYVFVGSSR FT YSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSG FT IIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNIPS FT IQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDEITNKVNSV FT IEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSN FT VKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEI FT DGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSLQCRICI" XX SQ Sequence 1701 BP; 603 A; 316 C; 375 G; 407 T; 0 other; atgaaggcaa tactagtagt tctgctatat acatttgcaa ccgcaaatgc agacacatta 60 tgtataggtt atcatgcgaa caattcaaca gacactgtag acacagtact agaaaagaat 120 gtaacagtaa cacactctgt taaccttcta gaagacaagc ataacgggaa actatgcaaa 180 ctaagagggg tagccccatt gcatttgggt aaatgtaaca ttgctggctg gatcctggga 240 aatccagagt gtgaatcact ctccacagca agctcatggt cctacattgt ggaaacacct 300 agttcagaca atggaacgtg ttacccagga gatttcatcg attatgagga gctaagagag 360 caattgagct cagtgtcatc atttgaaagg tttgagatat tccccaagac aagttcatgg 420 cccaatcatg actcgaacaa aggtgtaacg gcagcatgtc ctcatgctgg agcaaaaagc 480 ttctacaaaa atttaatatg gctagttaaa aaaggaaatt catacccaaa gctcagcaaa 540 tcctacatta atgataaagg gaaagaagtc ctcgtgctat ggggcattca ccatccatct 600 actagtgctg accaacaaag tctctatcag aatgcagata catatgtttt tgtggggtca 660 tcaagataca gcaagaagtt caaaccggaa atagcaataa gacccaaagt gagggatcaa 720 gaagggagaa tgaactatta ctggacacta gtagagccgg gagacaaaat aacattcgaa 780 gcaactggaa atctagtggt accgagatat gcattcgcaa tggaaagaaa tgctggatct 840 ggtattatca tttcagatac accagtccac gattgcaata caacttgtca aacacccaag 900 ggtgctataa acaccagcct cccatttcag aatatacatc cgatcacaat tggaaaatgt 960 ccaaaatatg taaaaagcac aaaattgaga ctggccacag gattgaggaa tatcccgtct 1020 attcaatcta gaggcctatt tggggccatt gccggtttca ttgaaggggg gtggacaggg 1080 atggtagatg gatggtacgg ttatcaccat caaaatgagc aggggtcagg atatgcagcc 1140 gacctgaaga gcacacagaa tgccattgac gagattacta acaaagtaaa ttctgttatt 1200 gaaaagatga atacacagtt cacagcagta ggtaaagagt tcaaccacct ggaaaaaaga 1260 atagagaatt taaataaaaa agttgatgat ggtttcctgg acatttggac ttacaatgcc 1320 gaactgttgg ttctattgga aaatgaaaga actttggact accacgattc aaatgtgaag 1380 aacttatatg aaaaggtaag aagccagcta aaaaacaatg ccaaggaaat tggaaacggc 1440 tgctttgaat tttaccacaa atgcgataac acgtgcatgg aaagtgtcaa aaatgggact 1500 tatgactacc caaaatactc agaggaagca aaattaaaca gagaagaaat agatggggta 1560 aagctggaat caacaaggat ttaccagatt ttggcgatct attcaactgt cgccagttca 1620 ttggtactgg tagtctccct gggggcaatc agtttctgga tgtgctctaa tgggtctcta 1680 cagtgtagaa tatgtattta a 1701 // ID GQ287620; SV 1; linear; viral cRNA; STD; VRL; 1410 BP. XX AC GQ287620; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Fukuoka-C/1/2009(H1N1)) segment 6 neuraminidase (NA) DE gene, complete cds. XX KW . XX OS Influenza A virus (A/Fukuoka-C/1/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1410 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; a136c101f011924e04ff67f62b9cb95e. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1410 FT /organism="Influenza A virus (A/Fukuoka-C/1/2009(H1N1))" FT /segment="6" FT /host="Homo sapiens" FT /strain="A/Fukuoka-C/1/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="07-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653949" FT gene 1..1410 FT /gene="NA" FT CDS 1..1410 FT /codon_start=1 FT /gene="NA" FT /product="neuraminidase" FT /db_xref="GOA:C6KMU5" FT /db_xref="InterPro:IPR001860" FT /db_xref="InterPro:IPR033654" FT /db_xref="InterPro:IPR036278" FT /db_xref="UniProtKB/TrEMBL:C6KMU5" FT /protein_id="ACS54264.1" FT /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHSIQLGNQNQ FT IETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPVSGWAIYSKDN FT SVRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDRSPYRTLMSCPI FT GEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNN FT ILRTQESECACVNGSCFTVMTDGPSNGQASYKIFRIEKGKIVKSVEMNAPNYHYEECSC FT YPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNPRPNDKTGSCGPVSS FT NGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTDNNFSIKQDIVGINEW FT SGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSSISFCGVNSDTVGWSWP FT DGAELPFTIDK" XX SQ Sequence 1410 BP; 448 A; 263 C; 332 G; 367 T; 0 other; atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct 60 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt 120 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact 180 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg 240 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac 300 agtaaagaca acagtgtaag aatcggttcc aagggggatg tgtttgtcat aagggagcca 360 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta 420 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc 480 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca 540 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat 600 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga 660 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact 720 gtaatgaccg atggaccaag taatggacag gcctcataca agatcttcag aatagaaaag 780 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc 840 tgttatcctg attctagtga aatcacatgt gtgtgcaggg ataactggca tggctcgaat 900 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg 960 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct 1020 aatggagcaa atggagtaaa agggttttca ttcaaatacg gcaatggtgt ttggataggg 1080 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg 1140 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca 1200 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct 1260 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg 1320 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt 1380 gctgagttgc catttaccat tgacaagtaa 1410 // ID GQ287621; SV 1; linear; viral cRNA; STD; VRL; 1701 BP. XX AC GQ287621; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Shiga/2/2009(H1N1)) segment 4 hemagglutinin (HA) gene, DE complete cds. XX KW . XX OS Influenza A virus (A/Shiga/2/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1701 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; abafd9051768cdb996281884b67b933a. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1701 FT /organism="Influenza A virus (A/Shiga/2/2009(H1N1))" FT /segment="4" FT /host="Homo sapiens" FT /strain="A/Shiga/2/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="19-May-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653950" FT gene 1..1701 FT /gene="HA" FT CDS 1..1701 FT /codon_start=1 FT /gene="HA" FT /product="hemagglutinin" FT /db_xref="GOA:C6KMU6" FT /db_xref="InterPro:IPR000149" FT /db_xref="InterPro:IPR001364" FT /db_xref="InterPro:IPR008980" FT /db_xref="InterPro:IPR013828" FT /db_xref="UniProtKB/TrEMBL:C6KMU6" FT /protein_id="ACS54260.1" FT /translation="MKAILVVLLYTFATANADTLCIGYHANNSTDTVDTVLEKNVTVTH FT SVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETSSSDN FT GTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYK FT NLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADAYVFVGSSR FT YSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSG FT IIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNVPS FT IQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDEITNKVNSV FT IEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSN FT VKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEI FT DGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSLQCRICI" XX SQ Sequence 1701 BP; 599 A; 315 C; 379 G; 408 T; 0 other; atgaaggcaa tactagtagt tctgctatat acatttgcaa ccgcaaatgc agacacatta 60 tgtataggtt atcatgcgaa caattcaaca gacactgtag acacagtact agaaaagaat 120 gtaacagtaa cacactctgt taaccttcta gaagacaagc ataacgggaa actatgcaaa 180 ctaagagggg tagccccatt gcatttgggt aaatgtaaca ttgctggctg gatcctggga 240 aatccagagt gtgaatcact ctccacagca agctcatggt cctacattgt ggaaacatct 300 agttcagaca atggaacgtg ttacccagga gatttcatcg attatgagga gctaagagag 360 caattgagct cagtgtcatc atttgaaagg tttgagatat tccccaagac aagttcatgg 420 cccaatcatg actcgaacaa aggtgtaacg gcagcatgtc ctcatgctgg agcaaaaagc 480 ttctacaaaa atttaatatg gctagttaaa aaaggaaatt catacccaaa gctcagcaaa 540 tcctacatta atgataaagg gaaagaagtc ctcgtgctat ggggcattca ccatccatct 600 actagtgctg accaacaaag tctctatcag aatgcagatg catatgtttt tgtggggtca 660 tcaagataca gcaagaagtt caagccggaa atagcaataa gacccaaagt gagggatcaa 720 gaagggagaa tgaactatta ctggacacta gtagagccgg gagacaaaat aacattcgaa 780 gcaactggaa atctagtggt accgagatat gcattcgcaa tggaaagaaa tgctggatct 840 ggtattatca tttcagatac accagtccac gattgcaata caacttgtca gacacccaag 900 ggtgctataa acaccagcct cccatttcag aatatacatc cgatcacaat tggaaaatgt 960 ccaaaatatg taaaaagcac aaaattgaga ctggccacag gattgaggaa tgtcccgtct 1020 attcaatcta gaggcctatt tggggccatt gccggtttca ttgaaggggg gtggacaggg 1080 atggtagatg gatggtacgg ttatcaccat caaaatgagc aggggtcagg atatgcagcc 1140 gacctgaaga gcacacagaa tgccattgac gagattacta acaaagtaaa ttctgttatt 1200 gaaaagatga atacacagtt cacagcagta ggtaaagagt tcaaccacct ggaaaaaaga 1260 atagagaatt taaataaaaa agttgatgat ggtttcctgg acatttggac ttacaatgcc 1320 gaactgttgg ttctattgga aaatgaaaga actttggact accacgattc aaatgtgaag 1380 aacttatatg aaaaggtaag aagccagcta aaaaacaatg ccaaggaaat tggaaacggc 1440 tgctttgaat tttaccacaa atgcgataac acgtgcatgg aaagtgtcaa aaatgggact 1500 tatgactacc caaaatactc agaggaagca aaattaaaca gagaagaaat agatggggta 1560 aagctggaat caacaaggat ttaccagatt ttggcgatct attcaactgt cgccagttca 1620 ttggtactgg tagtctccct gggggcaatc agtttctgga tgtgctctaa tgggtctcta 1680 cagtgtagaa tatgtattta a 1701 // ID GQ287622; SV 1; linear; viral cRNA; STD; VRL; 1410 BP. XX AC GQ287622; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Shiga/2/2009(H1N1)) segment 6 neuraminidase (NA) gene, DE complete cds. XX KW . XX OS Influenza A virus (A/Shiga/2/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1410 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; 0c1ba1b6e50a486c4387d94e04923d90. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1410 FT /organism="Influenza A virus (A/Shiga/2/2009(H1N1))" FT /segment="6" FT /host="Homo sapiens" FT /strain="A/Shiga/2/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="19-May-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653950" FT gene 1..1410 FT /gene="NA" FT CDS 1..1410 FT /codon_start=1 FT /gene="NA" FT /product="neuraminidase" FT /db_xref="GOA:C6KMU7" FT /db_xref="InterPro:IPR001860" FT /db_xref="InterPro:IPR033654" FT /db_xref="InterPro:IPR036278" FT /db_xref="UniProtKB/TrEMBL:C6KMU7" FT /protein_id="ACS54265.1" FT /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHSIQLGNQNQ FT IETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPVSGWAIYSKDN FT SIRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDRSPYRTLMSCPI FT GEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNN FT ILRTQESECACVNGSCFTVMTDGPSNGQASYKIFRIEKGKIVKSVEMNAPNYHYEECSC FT YPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNPRPNDKTGSCGPVSS FT NGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTDNNFSIKQDIVGINEW FT SGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSSISFCGVNSDTVGWSWP FT DGAELPFTIDK" XX SQ Sequence 1410 BP; 451 A; 263 C; 329 G; 367 T; 0 other; atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct 60 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt 120 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact 180 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg 240 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac 300 agtaaagaca acagtataag aatcggttcc aagggggatg tgtttgtcat aagggaacca 360 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta 420 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc 480 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca 540 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat 600 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga 660 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact 720 gtaatgaccg atggaccaag taatggacag gcctcataca agatcttcag aatagaaaag 780 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc 840 tgttatcctg attctagtga aatcacatgt gtgtgcaggg ataactggca tggctcgaat 900 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg 960 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct 1020 aatggagcaa atggagtaaa aggattttca ttcaaatacg gcaatggtgt ttggataggg 1080 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg 1140 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca 1200 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct 1260 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg 1320 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt 1380 gctgagttgc catttaccat tgacaagtaa 1410 // ID GQ287623; SV 1; linear; viral cRNA; STD; VRL; 1701 BP. XX AC GQ287623; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Shiga/3/2009(H1N1)) segment 4 hemagglutinin (HA) gene, DE complete cds. XX KW . XX OS Influenza A virus (A/Shiga/3/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1701 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; 6c4ca758bb9eebc0cd277a07fd299dfa. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1701 FT /organism="Influenza A virus (A/Shiga/3/2009(H1N1))" FT /segment="4" FT /host="Homo sapiens" FT /strain="A/Shiga/3/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="06-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653951" FT gene 1..1701 FT /gene="HA" FT CDS 1..1701 FT /codon_start=1 FT /gene="HA" FT /product="hemagglutinin" FT /db_xref="GOA:C6KMU8" FT /db_xref="InterPro:IPR000149" FT /db_xref="InterPro:IPR001364" FT /db_xref="InterPro:IPR008980" FT /db_xref="InterPro:IPR013828" FT /db_xref="UniProtKB/TrEMBL:C6KMU8" FT /protein_id="ACS54261.1" FT /translation="MKAILVVLLYTFATANADTLCIGYHANNSTDTVDTVLEKNVTVTH FT SVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETSSSDN FT GTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYK FT NLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADAYVFVGTSR FT YSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSG FT IIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNVPS FT IQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDEITNKVNSV FT IEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSN FT VKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEI FT DGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSLQCRICI" XX SQ Sequence 1701 BP; 600 A; 314 C; 379 G; 408 T; 0 other; atgaaggcaa tactagtagt tctgctatat acatttgcaa ccgcaaatgc agacacatta 60 tgtataggtt atcatgcgaa caattcaaca gacactgtag acacagtact agaaaagaat 120 gtaacagtaa cacactctgt taaccttcta gaagacaagc ataacgggaa actatgcaaa 180 ctaagagggg tagccccatt gcatttgggt aaatgtaaca ttgctggctg gatcctggga 240 aatccagagt gtgaatcact ctccacagca agctcatggt cctacattgt ggaaacatct 300 agttcagaca atggaacgtg ttacccagga gatttcatcg attatgagga gctaagagag 360 caattgagct cagtgtcatc atttgaaagg tttgagatat tccccaagac aagttcatgg 420 cccaatcatg actcgaacaa aggtgtaacg gcagcatgtc ctcatgctgg agcaaaaagc 480 ttctacaaaa atttaatatg gctagttaaa aaaggaaatt catacccaaa gctcagcaaa 540 tcctacatta atgataaagg gaaagaagtc ctcgtgctat ggggcattca ccatccatct 600 actagtgctg accaacaaag tctctatcag aatgcagatg catatgtttt tgtggggaca 660 tcaagataca gcaagaagtt caagccggaa atagcaataa gacccaaagt gagggatcaa 720 gaagggagaa tgaactatta ctggacacta gtagagccgg gagacaaaat aacattcgaa 780 gcaactggaa atctagtggt accgagatat gcattcgcaa tggaaagaaa tgctggatct 840 ggtattatca tttcagatac accagtccac gattgcaata caacttgtca gacacccaag 900 ggtgctataa acaccagcct cccatttcag aatatacatc cgatcacaat tggaaaatgt 960 ccaaaatatg taaaaagcac aaaattgaga ctggccacag gattgaggaa tgtcccgtct 1020 attcaatcta gaggcctatt tggggccatt gccggtttca ttgaaggggg gtggacaggg 1080 atggtagatg gatggtacgg ttatcaccat caaaatgagc aggggtcagg atatgcagcc 1140 gacctgaaga gcacacagaa tgccattgac gagattacta acaaagtaaa ttctgttatt 1200 gaaaagatga atacacagtt cacagcagta ggtaaagagt tcaaccacct ggaaaaaaga 1260 atagagaatt taaataaaaa agttgatgat ggtttcctgg acatttggac ttacaatgcc 1320 gaactgttgg ttctattgga aaatgaaaga actttggact accacgattc aaatgtgaag 1380 aacttatatg aaaaggtaag aagccagtta aaaaacaatg ccaaggaaat tggaaacggc 1440 tgctttgaat tttaccacaa atgcgataac acgtgcatgg aaagtgtcaa aaatgggact 1500 tatgactacc caaaatactc agaggaagca aaattaaaca gagaagaaat agatggggta 1560 aagctggaat caacaaggat ttaccagatt ttggcgatct attcaactgt cgccagttca 1620 ttggtactgg tagtctccct gggggcaatc agtttctgga tgtgctctaa tgggtctcta 1680 cagtgtagaa tatgtattta a 1701 // ID GQ287624; SV 1; linear; viral cRNA; STD; VRL; 1410 BP. XX AC GQ287624; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Shiga/3/2009(H1N1)) segment 6 neuraminidase (NA) gene, DE complete cds. XX KW . XX OS Influenza A virus (A/Shiga/3/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1410 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; b2a7400699391f6de8a64cc7031a7a88. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1410 FT /organism="Influenza A virus (A/Shiga/3/2009(H1N1))" FT /segment="6" FT /host="Homo sapiens" FT /strain="A/Shiga/3/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="06-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653951" FT gene 1..1410 FT /gene="NA" FT CDS 1..1410 FT /codon_start=1 FT /gene="NA" FT /product="neuraminidase" FT /db_xref="GOA:C6KMU9" FT /db_xref="InterPro:IPR001860" FT /db_xref="InterPro:IPR033654" FT /db_xref="InterPro:IPR036278" FT /db_xref="UniProtKB/TrEMBL:C6KMU9" FT /protein_id="ACS54266.1" FT /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHSIQLGNQNQ FT IETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPVSGWAIYSKDN FT SIRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDRSPYRTLMSCPI FT GEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNN FT ILRTQESECACVNGSCFTVMTDGPSDGQASYKIFRIEKGKIVKSVEMNAPNYHYEECSC FT YPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNPRPNDKTGSCGPVSS FT NGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTDNNFSIKQDIVGINEW FT SGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSSISFCGVNSDTVGWSWP FT DGAELPFTIDK" XX SQ Sequence 1410 BP; 451 A; 263 C; 329 G; 367 T; 0 other; atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct 60 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt 120 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact 180 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg 240 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac 300 agtaaagaca acagtataag aatcggttcc aagggggatg tgtttgtcat aagggaacca 360 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta 420 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc 480 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca 540 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat 600 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga 660 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact 720 gtaatgaccg atggaccaag tgatggacag gcctcataca aaatcttcag aatagaaaag 780 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc 840 tgttatcctg attctagtga aatcacatgt gtgtgcaggg ataactggca tggctcgaat 900 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg 960 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct 1020 aatggagcaa atggagtaaa aggattttca ttcaaatacg gcaatggtgt ttggataggg 1080 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg 1140 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca 1200 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct 1260 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg 1320 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt 1380 gctgagttgc catttaccat tgacaagtaa 1410 // ID GQ287625; SV 1; linear; viral cRNA; STD; VRL; 1701 BP. XX AC GQ287625; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Tokushima/1/2009(H1N1)) segment 4 hemagglutinin (HA) DE gene, complete cds. XX KW . XX OS Influenza A virus (A/Tokushima/1/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1701 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; 1e335d5ff60b81d076e03d8924704bb3. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1701 FT /organism="Influenza A virus (A/Tokushima/1/2009(H1N1))" FT /segment="4" FT /host="Homo sapiens" FT /strain="A/Tokushima/1/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="02-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653952" FT gene 1..1701 FT /gene="HA" FT CDS 1..1701 FT /codon_start=1 FT /gene="HA" FT /product="hemagglutinin" FT /db_xref="GOA:C6KMV0" FT /db_xref="InterPro:IPR000149" FT /db_xref="InterPro:IPR001364" FT /db_xref="InterPro:IPR008980" FT /db_xref="InterPro:IPR013828" FT /db_xref="UniProtKB/TrEMBL:C6KMV0" FT /protein_id="ACS54262.1" FT /translation="MEAILVVLLYTFATANADTLCIGYHANNSTDTVDTVLEKNVTVTH FT SVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETSSSDN FT GTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGITAACPHAGAKSFYK FT NLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADAYVFVGSSR FT YSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSG FT IIISDTPVHDCNTTCQTPKGAINTSLPFHNIHPITIGKCPKYVKSTKLRLATGLRNVPS FT IQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDEITNKVNSV FT IEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSN FT VKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEI FT DGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSLQCRICI" XX SQ Sequence 1701 BP; 600 A; 314 C; 377 G; 410 T; 0 other; atggaagcaa tactagtagt tctgctatat acatttgcaa ccgcaaatgc agacacatta 60 tgtataggtt atcatgcgaa caattcaaca gacactgtag acacagtact agaaaagaat 120 gtaacagtaa cacactctgt taaccttcta gaagacaagc ataacgggaa actatgcaaa 180 ctaagagggg tagccccatt gcatttgggt aaatgtaaca ttgctggctg gatcctggga 240 aatccagagt gtgaatcact ctccacagca agctcatggt cctacattgt ggaaacatct 300 agttcagaca atggaacgtg ttacccagga gatttcatcg attatgagga gctaagagag 360 caattgagct cagtgtcatc atttgaaagg tttgagatat tccccaagac aagttcatgg 420 cccaatcatg actcgaacaa aggtataacg gcagcatgtc ctcatgctgg agcaaaaagc 480 ttctacaaaa atttaatatg gctagttaaa aaaggaaatt catacccaaa gctcagcaaa 540 tcctacatta atgataaagg gaaagaagtc ctcgtgctat ggggcattca ccatccatct 600 actagtgctg accaacaaag tctctatcag aatgcagatg catatgtttt tgtggggtca 660 tcaagataca gcaagaagtt caagccggaa atagcaataa ggcccaaagt gagggatcaa 720 gaagggagaa tgaactatta ctggacacta gtagagccag gagacaaaat aacattcgaa 780 gcaactggaa atctagtggt accgagatat gcattcgcaa tggaaagaaa tgctggatct 840 ggtattatca tttcagatac accagtccac gattgcaata caacttgtca gacacccaag 900 ggtgctataa acaccagcct cccatttcat aatatacatc cgatcacaat tggaaaatgt 960 ccaaaatatg taaaaagcac aaaattgaga ctggccacag gattgaggaa tgtcccgtct 1020 attcaatcta gaggcctatt tggggccatt gccggtttca ttgaaggggg gtggacaggg 1080 atggtagatg gatggtacgg ttatcaccat caaaatgagc aggggtcagg atatgcagcc 1140 gacctgaaga gcacacagaa tgccattgac gagattacta acaaagtaaa ttctgttatt 1200 gaaaagatga atacacagtt cacagcagta ggtaaagagt tcaaccacct ggaaaaaaga 1260 atagagaatt taaataaaaa agttgatgat ggtttcctgg acatttggac ttacaatgcc 1320 gaactgttgg ttctattgga aaatgaaaga actttggact accacgattc aaatgtgaag 1380 aacttatatg aaaaggtaag aagccagtta aaaaacaatg ccaaggaaat tggaaacggc 1440 tgctttgaat tttaccacaa atgcgataac acgtgcatgg aaagtgtcaa aaatgggact 1500 tatgactacc caaaatactc agaggaagca aaattaaaca gagaagaaat agatggggta 1560 aagctggaat caacaaggat ttaccagatt ttggcgatct attcaactgt cgccagttca 1620 ttggtactgg tagtctccct gggggcaatc agtttctgga tgtgctctaa tgggtctcta 1680 cagtgtagaa tatgtattta a 1701 // ID GQ287626; SV 1; linear; viral cRNA; STD; VRL; 1410 BP. XX AC GQ287626; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Tokushima/1/2009(H1N1)) segment 6 neuraminidase (NA) DE gene, complete cds. XX KW . XX OS Influenza A virus (A/Tokushima/1/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1410 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; e7836178f4082e93775506384ec4288e. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1410 FT /organism="Influenza A virus (A/Tokushima/1/2009(H1N1))" FT /segment="6" FT /host="Homo sapiens" FT /strain="A/Tokushima/1/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="02-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653952" FT gene 1..1410 FT /gene="NA" FT CDS 1..1410 FT /codon_start=1 FT /gene="NA" FT /product="neuraminidase" FT /db_xref="GOA:C6KMV1" FT /db_xref="InterPro:IPR001860" FT /db_xref="InterPro:IPR033654" FT /db_xref="InterPro:IPR036278" FT /db_xref="UniProtKB/TrEMBL:C6KMV1" FT /protein_id="ACS54267.1" FT /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHSIQLGNQNQ FT IETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPVSGWAIYSKDN FT SIRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDRSPYRTLMSCPI FT GEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNN FT ILRTQESECACVNGSCFTVMTDGPSDGQASYKIFRIEKGKIVKSVEMNAPNYHYEECSC FT YPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNPRPNDKTGSCGPVSS FT NGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTDNNFSIKQDIVGINEW FT SGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSSISFCGVNSDTVGWSWP FT DGAELPFTIDK" XX SQ Sequence 1410 BP; 450 A; 263 C; 330 G; 367 T; 0 other; atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct 60 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt 120 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact 180 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg 240 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac 300 agtaaagaca acagtataag aatcggttcc aagggggatg tgtttgtcat aagggaacca 360 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta 420 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc 480 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca 540 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat 600 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga 660 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact 720 gtaatgaccg atggaccaag tgatggacag gcctcataca agatcttcag aatagaaaag 780 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc 840 tgttatcctg attctagtga aatcacatgt gtgtgcaggg ataactggca tggctcgaat 900 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg 960 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct 1020 aatggagcaa atggagtaaa aggattttca ttcaaatacg gcaatggtgt ttggataggg 1080 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg 1140 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca 1200 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct 1260 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg 1320 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt 1380 gctgagttgc catttaccat tgacaagtaa 1410 // ID GQ287627; SV 1; linear; viral cRNA; STD; VRL; 1701 BP. XX AC GQ287627; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Yokohama/1/2009(H1N1)) segment 4 hemagglutinin (HA) DE gene, complete cds. XX KW . XX OS Influenza A virus (A/Yokohama/1/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1701 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1701 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; 6c4ca758bb9eebc0cd277a07fd299dfa. DR EuropePMC; PMC2863916; 20220170. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1701 FT /organism="Influenza A virus (A/Yokohama/1/2009(H1N1))" FT /segment="4" FT /host="Homo sapiens" FT /strain="A/Yokohama/1/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="09-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653953" FT gene 1..1701 FT /gene="HA" FT CDS 1..1701 FT /codon_start=1 FT /gene="HA" FT /product="hemagglutinin" FT /db_xref="GOA:C6KMV2" FT /db_xref="InterPro:IPR000149" FT /db_xref="InterPro:IPR001364" FT /db_xref="InterPro:IPR008980" FT /db_xref="InterPro:IPR013828" FT /db_xref="UniProtKB/TrEMBL:C6KMV2" FT /protein_id="ACS54263.1" FT /translation="MKAILVVLLYTFATANADTLCIGYHANNSTDTVDTVLEKNVTVTH FT SVNLLEDKHNGKLCKLRGVAPLHLGKCNIAGWILGNPECESLSTASSWSYIVETSSSDN FT GTCYPGDFIDYEELREQLSSVSSFERFEIFPKTSSWPNHDSNKGVTAACPHAGAKSFYK FT NLIWLVKKGNSYPKLSKSYINDKGKEVLVLWGIHHPSTSADQQSLYQNADAYVFVGTSR FT YSKKFKPEIAIRPKVRDQEGRMNYYWTLVEPGDKITFEATGNLVVPRYAFAMERNAGSG FT IIISDTPVHDCNTTCQTPKGAINTSLPFQNIHPITIGKCPKYVKSTKLRLATGLRNVPS FT IQSRGLFGAIAGFIEGGWTGMVDGWYGYHHQNEQGSGYAADLKSTQNAIDEITNKVNSV FT IEKMNTQFTAVGKEFNHLEKRIENLNKKVDDGFLDIWTYNAELLVLLENERTLDYHDSN FT VKNLYEKVRSQLKNNAKEIGNGCFEFYHKCDNTCMESVKNGTYDYPKYSEEAKLNREEI FT DGVKLESTRIYQILAIYSTVASSLVLVVSLGAISFWMCSNGSLQCRICI" XX SQ Sequence 1701 BP; 600 A; 314 C; 379 G; 408 T; 0 other; atgaaggcaa tactagtagt tctgctatat acatttgcaa ccgcaaatgc agacacatta 60 tgtataggtt atcatgcgaa caattcaaca gacactgtag acacagtact agaaaagaat 120 gtaacagtaa cacactctgt taaccttcta gaagacaagc ataacgggaa actatgcaaa 180 ctaagagggg tagccccatt gcatttgggt aaatgtaaca ttgctggctg gatcctggga 240 aatccagagt gtgaatcact ctccacagca agctcatggt cctacattgt ggaaacatct 300 agttcagaca atggaacgtg ttacccagga gatttcatcg attatgagga gctaagagag 360 caattgagct cagtgtcatc atttgaaagg tttgagatat tccccaagac aagttcatgg 420 cccaatcatg actcgaacaa aggtgtaacg gcagcatgtc ctcatgctgg agcaaaaagc 480 ttctacaaaa atttaatatg gctagttaaa aaaggaaatt catacccaaa gctcagcaaa 540 tcctacatta atgataaagg gaaagaagtc ctcgtgctat ggggcattca ccatccatct 600 actagtgctg accaacaaag tctctatcag aatgcagatg catatgtttt tgtggggaca 660 tcaagataca gcaagaagtt caagccggaa atagcaataa gacccaaagt gagggatcaa 720 gaagggagaa tgaactatta ctggacacta gtagagccgg gagacaaaat aacattcgaa 780 gcaactggaa atctagtggt accgagatat gcattcgcaa tggaaagaaa tgctggatct 840 ggtattatca tttcagatac accagtccac gattgcaata caacttgtca gacacccaag 900 ggtgctataa acaccagcct cccatttcag aatatacatc cgatcacaat tggaaaatgt 960 ccaaaatatg taaaaagcac aaaattgaga ctggccacag gattgaggaa tgtcccgtct 1020 attcaatcta gaggcctatt tggggccatt gccggtttca ttgaaggggg gtggacaggg 1080 atggtagatg gatggtacgg ttatcaccat caaaatgagc aggggtcagg atatgcagcc 1140 gacctgaaga gcacacagaa tgccattgac gagattacta acaaagtaaa ttctgttatt 1200 gaaaagatga atacacagtt cacagcagta ggtaaagagt tcaaccacct ggaaaaaaga 1260 atagagaatt taaataaaaa agttgatgat ggtttcctgg acatttggac ttacaatgcc 1320 gaactgttgg ttctattgga aaatgaaaga actttggact accacgattc aaatgtgaag 1380 aacttatatg aaaaggtaag aagccagtta aaaaacaatg ccaaggaaat tggaaacggc 1440 tgctttgaat tttaccacaa atgcgataac acgtgcatgg aaagtgtcaa aaatgggact 1500 tatgactacc caaaatactc agaggaagca aaattaaaca gagaagaaat agatggggta 1560 aagctggaat caacaaggat ttaccagatt ttggcgatct attcaactgt cgccagttca 1620 ttggtactgg tagtctccct gggggcaatc agtttctgga tgtgctctaa tgggtctcta 1680 cagtgtagaa tatgtattta a 1701 // ID GQ287628; SV 1; linear; viral cRNA; STD; VRL; 1410 BP. XX AC GQ287628; XX PR Project:PRJNA37813; XX DT 23-JUN-2009 (Rel. 101, Created) DT 23-JUL-2009 (Rel. 101, Last updated, Version 2) XX DE Influenza A virus (A/Yokohama/1/2009(H1N1)) segment 6 neuraminidase (NA) DE gene, complete cds. XX KW . XX OS Influenza A virus (A/Yokohama/1/2009(H1N1)) OC Viruses; Riboviria; Negarnaviricota; Polyploviricotina; Insthoviricetes; OC Articulavirales; Orthomyxoviridae; Alphainfluenzavirus. XX RN [1] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Horikawa H., Kato Y., Oguchi A., RA Fujita N., Odagiri T.; RT "Human infection with novel swine H1N1 influenza"; RL Unpublished. XX RN [2] RP 1-1410 RA Horikawa H., Kato Y., Oguchi A., Fujita N.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Technology and Evaluation (NITE), Tokyo, Japan XX RN [3] RP 1-1410 RA Ujike M., Obuchi M., Tashiro M., Odagiri T.; RT ; RL Submitted (19-JUN-2009) to the INSDC. RL National Institute of Infectious Diseases, 4-7-1, Gakuen, Musashi-murayama, RL Tokyo 208-0011, Japan XX DR MD5; b2a7400699391f6de8a64cc7031a7a88. XX CC Swine influenza A (H1N1) virus isolated during human swine flu CC outbreak of 2009. XX FH Key Location/Qualifiers FH FT source 1..1410 FT /organism="Influenza A virus (A/Yokohama/1/2009(H1N1))" FT /segment="6" FT /host="Homo sapiens" FT /strain="A/Yokohama/1/2009" FT /serotype="H1N1" FT /mol_type="viral cRNA" FT /country="Japan" FT /collection_date="09-Jun-2009" FT /note="lineage: swl passage history: MDCK1" FT /db_xref="taxon:653953" FT gene 1..1410 FT /gene="NA" FT CDS 1..1410 FT /codon_start=1 FT /gene="NA" FT /product="neuraminidase" FT /db_xref="GOA:C6KMV3" FT /db_xref="InterPro:IPR001860" FT /db_xref="InterPro:IPR033654" FT /db_xref="InterPro:IPR036278" FT /db_xref="UniProtKB/TrEMBL:C6KMV3" FT /protein_id="ACS54268.1" FT /translation="MNPNQKIITIGSVCMTIGMANLILQIGNIISIWISHSIQLGNQNQ FT IETCNQSVITYENNTWVNQTYVNISNTNFAAGQSVVSVKLAGNSSLCPVSGWAIYSKDN FT SIRIGSKGDVFVIREPFISCSPLECRTFFLTQGALLNDKHSNGTIKDRSPYRTLMSCPI FT GEVPSPYNSRFESVAWSASACHDGINWLTIGISGPDNGAVAVLKYNGIITDTIKSWRNN FT ILRTQESECACVNGSCFTVMTDGPSDGQASYKIFRIEKGKIVKSVEMNAPNYHYEECSC FT YPDSSEITCVCRDNWHGSNRPWVSFNQNLEYQIGYICSGIFGDNPRPNDKTGSCGPVSS FT NGANGVKGFSFKYGNGVWIGRTKSISSRNGFEMIWDPNGWTGTDNNFSIKQDIVGINEW FT SGYSGSFVQHPELTGLDCIRPCFWVELIRGRPKENTIWTSGSSISFCGVNSDTVGWSWP FT DGAELPFTIDK" XX SQ Sequence 1410 BP; 451 A; 263 C; 329 G; 367 T; 0 other; atgaatccaa accaaaagat aataaccatt ggttcggtct gtatgacaat tggaatggct 60 aacttaatat tacaaattgg aaacataatc tcaatatgga ttagccactc aattcaactt 120 gggaatcaaa atcagattga aacatgcaat caaagcgtca ttacttatga aaacaacact 180 tgggtaaatc agacatatgt taacatcagc aacaccaact ttgctgctgg acagtcagtg 240 gtttccgtga aattagcggg caattcctct ctctgccctg ttagtggatg ggctatatac 300 agtaaagaca acagtataag aatcggttcc aagggggatg tgtttgtcat aagggaacca 360 ttcatatcat gctccccctt ggaatgcaga accttcttct tgactcaagg ggccttgcta 420 aatgacaaac attccaatgg aaccattaaa gacaggagcc catatcgaac cctaatgagc 480 tgtcctattg gtgaagttcc ctctccatac aactcaagat ttgagtcagt cgcttggtca 540 gcaagtgctt gtcatgatgg catcaattgg ctaacaattg gaatttctgg cccagacaat 600 ggggcagtgg ctgtgttaaa gtacaacggc ataataacag acactatcaa gagttggaga 660 aacaatatat tgagaacaca agagtctgaa tgtgcatgtg taaatggttc ttgctttact 720 gtaatgaccg atggaccaag tgatggacag gcctcataca aaatcttcag aatagaaaag 780 ggaaagatag tcaaatcagt cgaaatgaat gcccctaatt atcactatga ggaatgctcc 840 tgttatcctg attctagtga aatcacatgt gtgtgcaggg ataactggca tggctcgaat 900 cgaccgtggg tgtctttcaa ccagaatctg gaatatcaga taggatacat atgcagtggg 960 attttcggag acaatccacg ccctaatgat aagacaggca gttgtggtcc agtatcgtct 1020 aatggagcaa atggagtaaa aggattttca ttcaaatacg gcaatggtgt ttggataggg 1080 agaactaaaa gcattagttc aagaaacggt tttgagatga tttgggatcc gaacggatgg 1140 actgggacag acaataactt ctcaataaag caagatatcg taggaataaa tgagtggtca 1200 ggatatagcg ggagttttgt tcagcatcca gaactaacag ggctggattg tataagacct 1260 tgcttctggg ttgaactaat cagagggcga cccaaagaga acacaatctg gactagcggg 1320 agcagcatat ccttttgtgg tgtaaacagt gacactgtgg gttggtcttg gccagacggt 1380 gctgagttgc catttaccat tgacaagtaa 1410 // ID GQ287640; SV 1; linear; genomic RNA; STD; VRL; 11510 BP. XX AC GQ287640; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate McMillan, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11510 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11510 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; 3cc830a0193f414a98215d75fb5faff2. DR EuropePMC; PMC2887574; 19403754. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC3609757; 23544138. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4259830; 25463613. DR EuropePMC; PMC5525299; 28738838. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11510 FT /organism="Western equine encephalitis virus" FT /host="Homo sapiens" FT /isolate="McMillan" FT /mol_type="genomic RNA" FT /country="Canada:Ontario" FT /isolation_source="brain" FT /collection_date="1941" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7455 FT /codon_start=1 FT /transl_except=(pos:5608..5610,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPF1" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPF1" FT /protein_id="ACT75275.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDEVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITDKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRLGK FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLRLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSXETPRGHIRVTSYPGEEKIGSYAILSPQAVLNSEKLECIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDIDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLKTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRRMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKTLTAKYPGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKVNVCWAKALEPVLATANIVLTRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMNGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLGVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIIEAIHRKESVEILDDDDKPVDIDLVRVHPNSSLAGRPGYSVN FT EGKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESE FT ASAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFPLPKYRITGVQKLQCSKPVLF FT SGVVPPAVHPRKYAEIILETPPSPTTTTVICEPTVPERIPSPVISRAPSAESLLSFGGV FT SFSSSATRSSTAWSDYDRRFVVTADVHQANTSTWSIPSAPGLDVQLPSDDTDSHWSIPS FT ASGFEVRTPSVQDLTAECARPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRST FT ASAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQ FT KSVRQCKLQDPIFERAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMK FT AITAERLISGLGTYLSSEVNPVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQEN FT YPTVASYCITDEYDSYLDMVDGASCCIDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPI FT QNTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTT FT ENVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKV FT QVIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAEHFHHGDPVL FT ETDIASFDKSEDDAIAISALMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAM FT MKSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATW FT LNMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLPVDDTQDCD FT RRRALHDEAMRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGNPI FT TLYG" FT CDS 7500..11210 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPF2" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPF2" FT /protein_id="ACT75276.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRAPNPPPGPPPKKKKSAPEPKPTQPKKKKQQAKKTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASMYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTIKDTPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDVLEENVDNPNYDTLLENVLKCPSRRPKRSITDDFTLTSPYLGFCPYCRH FT SAPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSYDHDHDIKEDSM FT EKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGASENSCTVEKKIRRKFVGREE FT YLFPPVQGKLVKCHVYDRLKETSAGYITMHRPGPHAYKSYLKEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTQTKMNGCTKARQCIAYKLDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACIAKARRDCLTPYALAPNATVPTALAVLCCIRPTNAETFGETLNHLW FT FNNQPFLWAQLCIPLAALIILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCKFHTVIPSPQVKCCGSLECKASSKA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGLVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTATGSITLHFSTSSPQANFIVSL FT CGKKTTCNAECKPPADHIIGEPHKVDQEFQAAVSKTSWNWLLALFGGASSLIVVGLIVL FT VCSSMLINTRR" FT 3'UTR 11211..11510 XX SQ Sequence 11510 BP; 3265 A; 2852 C; 2808 G; 2583 T; 2 other; atagggcacg gtatagagga acctacccta caaactaatc gatccaatat ggaaagaatt 60 cacgttgact tagatgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg acgaagttat cttggacatt 240 ggaagtgcgc ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccccatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gacgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggttttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcctaccc tacttacaac acaaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggcttgg aaaactctca 720 atccttagga agaagaggct ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aggatagatc actgttacgt agctggcatc ttccaaacgt gttccacctg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgtga agggtacgtc 900 atcaaaaaga taacgatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgctgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgatgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaag 1260 gagctagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaggc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcact tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccaccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgkggaga caccacgagg acacatcagg 1680 gtaacaagtt acccaggtga agagaagatt gggtcttacg ctatactttc accccaggcg 1740 gttttgaata gtgaaaaact ggagtgtatc cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggctgg gcgatacaaa gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cagcggtccc tgttcaagac tttcaggcac tgagtgagag cgccacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tatttgcacc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtctttg acattgacgc acgaaagtgt gttaagcgag aagacgcagg tcccttgtgc 2100 ctaactggtg atctggtaga tccaccattt cacgagtttg cgtacgagag tctcaagaca 2160 cgaccagcag cacctcacaa agtcccaacc atcggagtct atggagtgcc aggttcaggt 2220 aaatctggaa tcatcaaaag cgctgtgact aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaattat cagggatgta aggaggatga gacgtatgga tgttgctgct 2340 aggactgttg attcagtgct tctaaatggg gttaagcacc ccgttaacac cctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaggtgtacc acaaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc cattgtctcc acgctcttct acgacaagcg aatgaagacg 2640 gttaacccat gtgctgacaa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga ttctaacctg tttcagagga tgggtgaaac agctacagat tgactataaa 2760 aatcatgaaa tcatgactgc ggctgcatcg caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga cccctggata 2940 aagacactta cagctaaata ccccggggat ttcacggctt cattggacga ctggcagcgc 3000 gaacacgacg ctattatggc acgcgttctt gataaaccgc agacagctga tgtgttccag 3060 aataaggtga acgtctgctg ggcgaaggct ttagagccag tcttggccac ggccaacatt 3120 gtgctgacga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg cactgaactt cttttgcacc aggttctttg gtgtagacct ggacagtggg 3240 ttgttttccg ctcctaccgt cgcacttact tacagggatc agcactggga caactcgcca 3300 gggaagaaca tgtatgggct taatagagag gtagcaaagg agctgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgcc ggttgcccca ctcgctgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagtggat tcctatctaa gatgaatggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattcctg ggaagaaagt agagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctcgatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatatt tgtcaatgtt aggaccccat acaagaacca tcactaccaa 3720 cagtgcgagg atcacgctat ccaccacagc atgctaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggccataggg tatggacttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtggctcg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcggtgt agtgcttgac aacatctacc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtta atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctagactt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtccat cgtcaacgct 4320 gagcggatta ctaaaatatc agtaccgcta ctgtcaactg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgccgat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taatcgaggc cattcaccgc 4500 aaagaaagcg tcgaaatact ggatgatgat gacaagccag tagacatcga cttggtcagg 4560 gtccacccaa acagctcttt ggcaggcaga ccaggttact ccgtcaatga gggcaagctg 4620 tattcatacc tggaaggtac acgattccat cagaccgcca aggacattgc cgaaatccat 4680 gcaatgtggc ccaacaaatc tgaggctaat gagcagattt gcttgtacat cctgggggag 4740 agtatgtcca gcatccgctc caaatgccca gtagaggagt cagaggcgtc tgctccacct 4800 cacacacttc catgcctgtg taattacgct atgacggctg agcgcgtata caggttgcgc 4860 tctgcgaaga aagaacagtt cgccgtatgc tcatcattcc cgttgccgaa gtacaggatc 4920 acaggcgtgc agaagctaca atgcagcaaa ccagtcctgt tctcaggcgt cgtaccaccg 4980 gctgtacacc ccaggaagta cgcggaaata attctagaaa cgccaccatc gccaacaacg 5040 acaaccgtaa tatgtgaacc aactgtgcca gaacgtatac ccagtccggt gatttctaga 5100 gcaccaagtg cggaatcact gctatcgttt ggcggcgtct cgttctctag ctctgccaca 5160 cgctcgtcaa ccgcctggag cgactatgac aggcggtttg tggttacagc tgacgtgcat 5220 caagcgaaca cgtctacgtg gagcatccct agtgctcctg gcttggacgt ccagctgcct 5280 tctgacgata ctgattccca ctggagtatt ccaagtgcat caggctttga agtgagaaca 5340 ccatctgtac aggacctaac tgcagagtgt gcgaggcctc gtggactggc cgaaataatg 5400 caagacttca atactgctcc tttccagttt ctttcggacc acagaccagt accagcacca 5460 cggagacgcc ccatcccatc acctagatcg acggcttccg cacctccagt tccaaagcca 5520 cgcagaacta agtaccaaca accaccagga gtcgctaggg cgatctcaga agcggagttg 5580 gacgagtaca tacgtcaaca ttccaactga cggtatgaag cgggagcgta tattttctca 5640 tcggaaacag gccaaggtca ccttcaacag aaatcagtac gtcaatgtaa actacaagac 5700 cctatatttg aacgggccgt ccatgagaag tattacgccc cgcgcctcga tctcgaaaga 5760 gagaagatgt tacagaagaa actgcaatta tgcgcctctg aaggaaatag aagcaggtat 5820 caatcaagaa aagtagaaaa tatgaaagca attacagcgg agcgactcat ttctggattg 5880 ggcacatatc tatcatcaga agtgaatcct gtcgagtgtt acagagtcaa ttatcctgta 5940 ccaatctact cgtcaacggt aattaacagg tttacatctg cagaggtcgc ggttaaaacg 6000 tgcaacttag tcatccaaga gaattaccct acagtagcca gttattgtat aacagatgaa 6060 tacgattcgt atcttgatat ggtggacggc gcatcgtgct gtatagatac mgccactttt 6120 tgtccggcta aactgagaag ctacccaaag aagcatagct acttgcagcc agagataaga 6180 tcagccgtcc catcgcctat acagaataca ttacaaaatg tattggctgc agctactaaa 6240 aggaactgca acgttaccca aatgcgagaa ctacctgttt tagattcggc ggcatttaac 6300 gttgattgtt tcaagaaata cgcatgcaat gatgagtatt gggatacctt tcgcgataac 6360 cctattcggc taactacaga gaacgttacg caatacgtga caaagctgaa agggccgaaa 6420 gcagcagcat tgttcgcgaa aactcacaat ctaaaaccgt tgcaggagat accaatggat 6480 caattcgtca tggatctaaa aagagatgtc aaagttactc ccggcacgaa acatacagag 6540 gagcggccta aggtgcaggt tattcaggct gcagatcctc ttgctaccgc ttacctttgc 6600 gggatccatc gagagttagt ccgtagactg aatgctgtgc ttctgccgaa tatccatact 6660 ctcttcgaca tgtcagcgga agattttgat gcgattattg ctgaacattt ccaccacggc 6720 gacccagtat tggaaacgga catcgcgtcg tttgataaaa gcgaagacga cgctatcgcc 6780 atttcggcgt tgatgatcct tgaggactta ggcgtcgacc aaccgctctt agatttgata 6840 gaggcggcgt tcggcaatat cacatctgtg cacctaccta caggaacgag gtttaaattt 6900 ggtgccatga tgaaatccgg tatgttctta acgctgtttg tcaacacact agtcaatatc 6960 atgattgcta gcagagtact acgtgaacgg ttaaccacgt cagcgtgcgc ggcctttatc 7020 ggcgacgata acatagtgca cggtgtcgtc tccgacacct tgatggcgga gagatgcgcc 7080 acttggctga acatggaagt aaaaattatt gatgcagtta ttggtatcaa agcaccctac 7140 ttctgcgggg gattcatcct ggtggatcag ataaccggca cagcctgtag ggtcgcagac 7200 cctctaaaaa ggctttttaa gcttggaaaa ccattgccag tcgatgacac ccaagactgt 7260 gaccgccgcc gggcactgca tgatgaagca atgcgatgga acagaattgg aattacggac 7320 gagttggtga aggccgtaga atccagatac gagatcatac tggcaggcct gatcatcacg 7380 tccctttcca cgttagccga aagcgttaag aacttcaaga gcataagagg gaacccaatc 7440 accctctacg gctgacctaa ataggtgacg tagtagacac gcacctaccc accgccaaaa 7500 tgtttccata ccctcagctg aacttcccac cagtttaccc tacaaatccg atggcttacc 7560 gagatccaaa ccctcctagg cgccgctgga ggccgtttcg gcccccgctg gctgctcaaa 7620 tcgaagatct taggaggtcg atagccaact taactttcaa acaacgagca cctaatccgc 7680 cgccaggtcc accgccaaag aagaagaaga gtgctcctga gccaaaacct actcagccta 7740 aaaagaagaa gcaacaagcc aagaagacga aacgcaagcc taaaccaggg aaacgacagc 7800 gtatgtgtat gaagttggag tcggacaaga catttccgat catgctgaac ggccaagtga 7860 atggatacgc ttgcgttgtc ggaggaaggc tgatgaaacc actccacgtt gaaggaaaaa 7920 tcgataatga gcaattagcg gccgtgaaat tgaagaaggc tagcatgtac gacctggagt 7980 atggcgacgt tccccagaat atgaaatcag acacgttgca gtacaccagc gacaaaccac 8040 cgggcttcta caactggcac cacggcgcag tccagtatga gaatgggaga ttcaccgtac 8100 cgcgaggagt gggcgggaaa ggcgacagtg gaagaccgat cctggacaac agaggcagag 8160 ttgtggctat tgttctagga ggtgcaaacg agggcacgcg tacggcgctt tcagtggtca 8220 cttggaacca gaaaggggtg accatcaagg atacccccga aggttctgaa ccgtggtcac 8280 tagttacagc gctgtgcgtg ctttcgaatg tcacgttccc atgcgacaaa ccacccgtgt 8340 gctattcact ggcgccagaa cgaacactcg acgtgctcga ggagaacgtc gacaatccaa 8400 attacgacac gctgctggag aacgtcttga aatgtccatc acgccggccc aaacgaagca 8460 ttaccgatga cttcacactg accagtccct acctggggtt ctgcccgtat tgcagacact 8520 cagcgccgtg tttcagccca ataaaaattg agaacgtgtg ggacgaatct gatgatggat 8580 cgattagaat ccaggtctcg gcacaatttg gctacaatca ggcaggcact gcagatgtca 8640 ccaaattccg ttacatgtct tacgaccacg accatgacat caaggaagac agtatggaga 8700 aaatagctat tagtacatct ggaccctgcc gtcgtcttgg ccacaaaggg tacttcctgt 8760 tagctcaatg tcctccaggt gacagtgtaa ccgtcagtat cacgagcgga gcatctgaga 8820 attcatgcac cgtggagaaa aagatcagga ggaagtttgt cggtagagag gagtacttgt 8880 tcccacctgt ccaaggaaag ctggtaaagt gccacgttta cgatcgcttg aaggagacgt 8940 ctgccggata cataaccatg cacaggccag gcccacacgc gtataagtcc tatctgaagg 9000 aagcgtcagg cgaagtgtac attaaaccac cttctggcaa gaacgtcacc tacgaatgta 9060 agtgtggcga ctacagcaca ggtattgtga gcacgcaaac gaagatgaac ggctgcacta 9120 aagcaagaca gtgcattgcc tacaagctcg accaaacgaa atgggtcttc aactcgccgg 9180 atcttattag gcacacagac cactcagtgc aaggtaaact gcacattcca ttccgcttga 9240 caccgacagt ctgcccggtt ccgttagctc acacgcctac agtcacgaag tggtttaaag 9300 gcatcaccct ccacctgact gcaacgcgac caacattgct gacaacgaga aaattggggc 9360 tgcgagcaga cgcaacagca gaatggatta cagggactac atccaggaat ttttctgtgg 9420 ggcgagaagg gctggagtac gtatggggca accatgaacc agtcagagtc tgggcccagg 9480 agtcggcacc aggcgacccg catggatggc cgcacgagat catcatccac tattatcatc 9540 ggcatccagt ctacactgtc attgtgctgt gcggtgtcgc tcttgctatc ctggtaggca 9600 ctgcatcgtc agcagcttgt atcgccaaag caagaagaga ctgcctgacg ccatacgcgc 9660 ttgcaccgaa cgcaacggta cccacagcat tagcagtttt gtgctgtatt cggccaacca 9720 acgcagaaac atttggagaa actttgaatc atctgtggtt taacaaccaa ccgtttctct 9780 gggcacagtt gtgcatccct ctggcagcgc ttattattct gttccgctgc ttttcatgct 9840 gcatgccttt tttattggtt gcaggcgtct gcctggggaa ggtagacgcc ttcgaacatg 9900 cgaccactgt gccaaatgtt ccggggatcc cgtataaggc gttggtcgaa cgtgcaggtt 9960 acgcgccact taatctggag attacggtcg tctcatcgga attaacaccc tcaactaaca 10020 aggagtacgt gacctgcaaa ttccacacag tcattccttc accacaagtt aaatgctgcg 10080 ggtccctcga gtgcaaggca tcctcaaaag cggattacac atgccgcgtt tttggcggtg 10140 tgtacccttt catgtgggga ggcgcacagt gcttctgtga cagtgagaac acacaactga 10200 gtgaggcata cgtcgagttc gctccagact gcactataga tcatgcagtc gcactaaaag 10260 ttcacacagc tgctctgaaa gtcggcctgc gtatagtata cggcaatacc accgcgcacc 10320 tggatacgtt cgtcaatggc gtcacgccag gttcctcacg ggacctgaag gtcatagcag 10380 ggccgatatc agccgctttt tcaccctttg accataaggt cgtcatcaga aaggggcttg 10440 tttacaacta cgacttccct gagtatggag ctatgaaacc aggagcgttc ggcgatattc 10500 aagcatcctc gcttgatgcc acagacatag tagcccgcac tgacatacgg ctgctgaagc 10560 cttctgtcaa gaacatccac gtcccctaca cccaagcagt atcagggtat gaaatgtgga 10620 agaacaactc aggacgaccc ctgcaagaaa cagcaccatt tggatgtaaa attgaagtgg 10680 agcctctgcg agcgtctaac tgtgcttatg ggcacatccc tatctcgatt gacatccctg 10740 atgcagcttt tgtgagatca tcagaatcac caacaatttt agaagtcagc tgcacagtag 10800 cagactgcat ttattctgca gactttggtg gttcgctaac actacagtac aaagctgaca 10860 gggagggaca ttgtccagtt cactcccact ccactacagc tgttttgaag gaagcgacca 10920 cacatgtgac tgccacaggc agcataacac tacattttag cacatcgagc ccacaagcaa 10980 atttcatagt ttcgctatgc ggcaagaaga ccacctgcaa tgctgaatgt aaaccaccgg 11040 ccgaccacat aattggagaa ccacataagg tcgaccaaga attccaggcg gcagtttcca 11100 aaacatcttg gaactggctg cttgcactgt ttgggggagc atcatctctc attgttgtag 11160 gacttatagt gttggtctgc agctctatgc ttataaacac acgtagatga ctgagcgcgg 11220 ccactgacat agcggtaaaa ctcgatgtac ttccgaggaa gcgtggtgca taatgccacg 11280 cgccgcttga cattaaaact cgatgtattt ccgaggaagc acagtgcata atgctgtgca 11340 gtgtcacatt aatcgtatat cacactacat attaacaaca ctatatcact tttatgagac 11400 tcatatgggt ctctaatata cactacacat attttactta aaaacactat acacacttta 11460 taaattcttt tataattttt cttttgtttt tattttgttt ttaaaatttc 11510 // ID GQ287641; SV 1; linear; genomic RNA; STD; VRL; 11509 BP. XX AC GQ287641; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate Imperial, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11509 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11509 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; 72ff841a046075e584a76d2f9acf9a42. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC3609757; 23544138. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4726549; 26807734. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11509 FT /organism="Western equine encephalitis virus" FT /host="Culex tarsalis" FT /isolate="Imperial" FT /mol_type="genomic RNA" FT /country="USA:Imperial County, California" FT /collection_date="2005" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7452 FT /codon_start=1 FT /transl_except=(pos:5605..5607,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPF3" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPF3" FT /protein_id="ACT75277.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITDKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRLGN FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLKLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSXETPRGHIRVTSYPGEEKIGSYAVLSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDVDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLRTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRCMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKILTAKYSGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKVNVCWAKALEPVLATANIVLTRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLAVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIIEAIHRKESVEILDDDKPVDIDLVRVHPNSALAGRPGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFLLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAEIILETPPPPVTTTVICEPTVPERIPSPAISRAPSAESLLSFSGVS FT FSSSATRSSTAWSDYDRRFVVTADVHQANTSTWSIPSAPGLDVQIPSDVSDSHWSVPSA FT SGFEVRTPSVQDLTAECAKPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRSTV FT SAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQK FT SVRQCKLQEPILDRAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMKA FT ITAERLISGLGTYLSSEVNPVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQENY FT PTVASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQ FT NTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTTE FT NVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQ FT VIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAGHFHHGDPVLE FT TDIASFDKSEDDAIAISAMMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMM FT KSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATWL FT NMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLSVEDTQDCDR FT RRALHDEAMRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGSPIT FT LYG" FT CDS 7497..11207 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPF4" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPF4" FT /protein_id="ACT75278.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRSPNPPPGPPPKKKKSAPKPKPTQPKKKKQQAKRTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASKYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTVWDPPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDVLEENVDNPNYDTLLENVLKCPSHRPKRSITDDFTLTSPYLGFCPYCRH FT STPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSM FT EKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGTAENSCTVERKIRRKFVGREE FT YLLPPIHGKQVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTRTKINGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVMKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACISKARRDCLTPYALAPNATVPTALVVLCCIRPTNAETLGETLNHLW FT FNNQPFLWAQLCIPLAALIILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCKFHTVIPSPQVKCCGSLECKASSRA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGFVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAVGSITLHFSTSSPQANFIVSL FT CGKKSTCNAECKPPADHIIGEPHKVDQEFQAAVSTTSWNWLLALFGGASSLIVVGLIVL FT VCSSMLINTRR" FT 3'UTR 11208..11509 XX SQ Sequence 11509 BP; 3248 A; 2826 C; 2824 G; 2608 T; 3 other; atagggcacg gtatagagga acctacccta cagactaatc gatccaatat ggaaagaatt 60 cacgttgact tagatgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggacatt 240 ggaagtgcgc ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccctatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gacgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggctttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcttaccc tacttacaac acgaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggcttgg aaacctctca 720 atccttagga agaagaggct ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aagatagatc actgttacgt agctggcatc ttccaaacgt gttccacttg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgtga agggtacgtc 900 ataaaaaaaa ttacaatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgttgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgacgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaaa 1260 gaactagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaagc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcatc tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccgccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgkggaga caccacgagg acacatcagg 1680 gtgacaagtt acccaggcga agagaagatt gggtcttacg ctgtactttc accccaggcg 1740 gtattgaata gtgaaaaact ggcgtgtatc cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggctgg gagatacaag gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cggcggtccc tgttcaagac ttccaggcat tgagtgagag cgctacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tacctgcatc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtcttcg acgttgacgc acgaaagtgt gttaagcgag aagacgcagg tccgttgtgc 2100 ctaaccggtg atctggtaga tccgccattt cacgagtttg cgtacgagag tcttaggacg 2160 cgaccagcag cacctcacaa agtcccaacc attggagtct atggagtgcc aggttcgggt 2220 aaatctggaa tcatcaaaag cgctgtgacc aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaatcat cagggatgta aggaggatga gatgtatgga tgttgctgct 2340 aggactgtag attctgtgct gctgaatggg gttaagcacc ccgttaacac tctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaagtgtacc ataaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc tatcgtctcc acgctctttt acgacaagcg aatgaagacg 2640 gttaacccat gtgctgacaa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga ttctaacctg tttcagagga tgggtgaaac agctacagat tgactataaa 2760 aatcatgaaa tcatgactgc ggctgcatcg caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga tccctggata 2940 aagatactta cagctaaata ttccggggat ttcacggctt cattggacga ctggcagcga 3000 gaacatgatg ccattatggc acgcgttctt gataagccgc agacagctga tgtgttccag 3060 aataaggtga acgtctgctg ggcgaaggct ctagagccag tcttggccac ggccaacatt 3120 gtgctgacga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg cactgaactt cttttgcacc aggttctttg gagtagacct ggacagtggg 3240 ttgttttccg ctcctaccgt cgcacttact tatagggatc agcactggga taactcgcca 3300 gggaagaaca tgtatgggct taatagagag gtagcaaagg agttgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgtc ggttacccca ctcgttgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagcggat tcctatctaa gatgaagggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattccag ggaagaaagt ggagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctagatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatatt tgtcaatgtt aggaccccgt ataagaacca tcactaccaa 3720 cagtgcgagg atcacgctat ccaccacagc atgttaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggctataggg tatgggcttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtagcgcg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcgctgt agtgcttgac aacatctacc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtta atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctagactt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtcaat cgtcaacgct 4320 gaacggatta ctaaaatatc agtaccgcta ctgtcaaccg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgccgat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taatcgaggc cattcaccgc 4500 aaagaaagcg tcgaaatwct ggatgatgac aagccggtag acattgactt ggtcagggtc 4560 catccaaaca gcgctttggc aggcagacct ggttactccg tcaatgaggg caagctgtat 4620 tcatacctgg aaggtacacg attccatcag accgccaagg acattgccga aatccatgca 4680 atgtggccca acaaatctga ggctaatgag cagatttgct tgtacatcct gggtgagagt 4740 atgtccagca tccgctccaa atgcccagta gaggagtcag aggcgtctgc tccacctcac 4800 acactgccgt gcctgtgtaa ttacgctatg acggctgagc gcgtatacag gttgcgctct 4860 gcgaagaaag aacagttcgc cgtatgctca tcattcctgt tgccgaagta caggatcaca 4920 ggcgtgcaga agctacaatg cagcaaacca gtcctgtttt caggcgtcgt accgccggct 4980 gtacacccca ggaagtacgc ggaaataatt ctagaaacgc caccaccgcc agtaacgaca 5040 accgtaatat gtgaacccac tgtgccagaa cgtataccca gtccggcgat ttctagagca 5100 ccaagtgcgg aatcactgct atcttttagc ggcgtctcgt tctctagctc tgccacacgc 5160 tcgtcaaccg cctggagcga ctatgacagg cggtttgtgg ttacagctga cgtgcatcaa 5220 gcgaacacat ctacgtggag catccctagt gctcctggct tggacgtcca aataccttct 5280 gacgtcagtg attcccactg gagtgttccg agtgcatcag gcttcgaagt gagaacacca 5340 tctgtacagg acctaactgc ggagtgtgca aagcctcgtg ggctggccga aataatgcaa 5400 gacttcaata cagccccttt ccagtttctt tcggaccaca gaccagtacc ggcaccacgg 5460 agacgcccca tcccatcacc tagatcgacg gtttccgcac ctccagttcc aaagccacgc 5520 aggactaagt accaacaacc accaggagtc gctagagcga tctcagaagc ggagttggac 5580 gagtacatcc gtcaacactc caattgacgg tatgaagcgg gagcgtatat tttctcatcg 5640 gaaacaggcc aaggtcacct tcaacagaaa tcagtacgtc aatgtaaact acaagaacct 5700 atattggacc gggccgtcca tgagaagtat tacgccccgc gcctcgatct cgaaagagag 5760 aaaatgttac agaagaaatt gcaattatgt gcctctgaag gaaatagaag caggtatcaa 5820 tcacgaaaag tagaaaatat gaaagcaatt acagcggagc gactcatttc tggattgggc 5880 acatacctat catcagaagt gaatcctgtc gagtgttaca gagtcaacta tcctgtacca 5940 atctactcgt caacggtaat taacaggttt acatctgcag aggtcgcggt taaaacgtgc 6000 aacttagtta tccaagagaa ttaccctaca gtagccagtt attgtataac agatgaatac 6060 gatgcgtatc ttgacatggt ggacggcgca tcgtgctgtc tagatacagc cactttttgt 6120 ccggctaaac tgagaagcta cccaaagaag catagctatt tgcagccaga gataagatca 6180 gccgtcccat cgcctataca gaatacatta caaaatgtat tggctgcagc tactaaaagg 6240 aattgcaacg ttacccaaat gcgagaatta cctgtcttag attcggcggc atttaacgtt 6300 gattgtttca agaaatacgc atgcaatgat gagtactggg atacctttcg cgataaccct 6360 attcggctaa ctacagagaa cgttacgcaa tatgtgacaa agctgaaagg gccgaaagca 6420 gcagcattgt ttgcgaaaac tcacaattta aaaccgttgc aggagatacc aatggatcaa 6480 ttcgtcatgg atctaaaaag agatgtcaaa gttactcccg gcacgaaaca tacagaggag 6540 cggcctaagg tgcaggttat tcaggctgca gacccccttg ctaccgctta cctttgcggg 6600 atccaccggg aattagtccg tagactgaac gctgtgcttc tgccgaatat ccatactctc 6660 ttcgacatgt cagcggaaga ttttgatgcg attattgctg gacatttcca ccacggcgac 6720 ccagtattgg aaacggacat cgcgtcgttt gataaaagcg aagacgacgc tatcgccatt 6780 tcggcgatga tgatccttga ggacttaggc gtcgaccaac cgctcttaga tttgatagag 6840 gcggcgttcg gcaatatcac atctgtgcac ctacctacag gaacgaggtt taaatttggt 6900 gccatgatga aatccggcat gttcttaacg ctgtttgtca acacactagt caatatcatg 6960 attgctagca gagtactacg tgaacggtta accacgtcag cgtgcgcggc ctttatcggc 7020 gacgataaca tagtgcatgg tgtcgtctcc gacaccttga tggcggagag atgcgccact 7080 tggctgaaca tggaagtaaa aattattgat gcagtcattg gtatcaaagc accctacttc 7140 tgcgggggat ttatcctggt ggaccagata acaggcacag cctgcagggt cgcagaccct 7200 ctaaaaaggc tttttaagct tggaaaaccg ttgtcagttg aagacaccca agactgcgac 7260 cgccgccggg cactgcatga tgaagcaatg cgatggaaca gaatcggaat tacggacgag 7320 ttggtgaagg ccgtagaatc cagatacgag atcatactgg caggcctgat catcacgtct 7380 ctgtccacgt tagccgaaag cgttaagaac ttcaagagca taagagggag cccaatcacc 7440 ctctacggct gacctaaata ggtgacgtag tagacacgca cctacccatc gccataatgt 7500 ttccataccc tcagctgaac tttccaccag tttaccctac aaatccgatg gcttaccgag 7560 atccaaaccc tcctaggcgc cgctggaggc cgtttcggcc cccgctggct gctcaaatcg 7620 aagatcttag gaggtcgata gctaacttga ctttcaaaca acgatcacct aatccgccgc 7680 caggtccacc gccaaagaag aagaagagtg ctcctaagcc aaaacctact cagcctaaaa 7740 agaagaagca gcaagccaag aggacgaaac gtaagcctaa accagggaaa cgacagcgta 7800 tgtgtatgaa gttggagtcg gacaagacat ttccgatcat gctgaacggc caagtgaatg 7860 gatacgcttg cgttgtcgga ggaaggctga tgaaaccact ccacgttgaa ggaaaaattg 7920 ataatgagca attagcggcc gtgaaattga agaaggctag caagtacgac ttagagtatg 7980 gcgacgttcc ccagaatatg aaatcagaca cgctgcagta caccagtgac aaaccaccgg 8040 gcttctacaa ctggcaccat ggcgcagtcc agtatgagaa tgggagattc accgtaccga 8100 gaggagtggg cgggaaaggc gacagcggaa gaccgatcct ggacaacaga ggcagagttg 8160 tggctattgt tctaggaggt gcaaatgagg gcacgcgtac ggcgctttca gtggtcactt 8220 ggaaccagaa aggggtgacc gtttgggatc cccccgaagg ttctgaaccg tggtcactag 8280 ttacagcgct gtgcgtgctt tcgaatgtca ctttcccatg tgacaaacca cccgtgtgct 8340 attcactggc gccagaacga acactcgacg tgctcgaaga gaacgtcgac aatccaaatt 8400 acgacacgct gctggagaac gtcttgaaat gtccatcaca ccggcccaaa cgaagcatta 8460 ccgatgactt cacactgacc agtccctact tggggttctg cccgtattgc agacactcaa 8520 cgccgtgttt cagcccaata aaaattgaga acgtgtggga cgaatctgat gatggatcga 8580 ttagaatcca ggtctcggca caattcggct acaatcaggc aggcactgca gatgtcacta 8640 aattccgtta catgtctttc gaccacgacc atgacatcaa ggaagacagt atggagaaaa 8700 tagccatcag cacatccgga ccctgccgtc gtcttggcca caaagggtat ttcctgttag 8760 ctcaatgtcc tccaggtgac agtgtaaccg tcagtatcac gagcggaact gctgagaact 8820 catgcaccgt ggagagaaag atcaggagga agtttgtcgg tagagaggag tacttgctcc 8880 cacccatcca tggaaagcag gtaaagtgcc acgtttacga tcacttgaaa gagacgtctg 8940 ccgggtatat aaccatgcac aggccaggcc cacacgcgta taagtcctat ctggaggaag 9000 cgtcaggcga agtgtatatt aaaccacctt ctggcaagaa cgtcacctac gaatgtaagt 9060 gtggcgacta cagcacaggt atcgtgagca cgcgaacgaa gataaacggc tgcactaaag 9120 caaaacagtg cattgcctac aagagcgacc aaacgaaatg ggtcttcaac tcgccggatc 9180 ttattaggca cacagaccac tcagtgcaag gtaaactgca cattccattc cgcttgacac 9240 cgacagtctg cccggttccg ttagctcaca cgcctacagt catgaagtgg ttcaaaggca 9300 tcaccctcca cctgactgca acgcgaccaa cattgctgac aacgagaaaa ttggggctgc 9360 gagcagacgc aacagcagaa tggattacag ggactacatc caggaatttt tctgtggggc 9420 gagaagggct ggagtacgta tggggcaacc atgaaccggt cagagtctgg gcccaggagt 9480 cggcaccagg cgacccacat ggatggccgc atgagattat cattcactat tatcatcggc 9540 atccagtcta caccgtcatt gtgctgtgtg gtgtcgctct tgctatcctg gtaggcactg 9600 catcgtcagc agcttgtatc tccaaagcaa gaagagactg cctgacgcca tacgcgcttg 9660 caccgaacgc gacggtaccc acagcattag tggttttgtg ctgcattcgg ccaaccaacg 9720 ctgaaacact tggagaaact ttgaaccatc tgtggtttaa caaccaaccg tttctctggg 9780 cacagttgtg cattcctctg gcggctctta ttattctgtt ccgctgcttt tcatgctgca 9840 tgcctttttt attggttgca ggcgtctgcc tggggaaggt agacgccttc gaacatgcga 9900 ccactgtgcc aaatgttccg gggatcccgt ataaggcgtt ggtcgaacgt gcaggttacg 9960 cgccacttaa cctggagatc actgttgtct catcggaatt aacaccctca actaataagg 10020 agtacgtgac ctgcaaattc cacacagtca ttccttcacc acaagttaaa tgctgcgggt 10080 ccctcgagtg taaggcatcc tcaagggcgg attacacatg ccgcgttttt ggcggtgtgt 10140 accctttcat gtggggaggc gcacaatgct tctgtgacag tgagaacaca caactgagtg 10200 aggcatacgt cgagttcgct ccggactgca ctatagatca cgcagtcgca ctaaaagttc 10260 atacagctgc tctgaaagtc ggcctgcgta tagtgtacgg taataccacc gcgcacctgg 10320 atacgttcgt caacggcgtc acaccaggtt cctcacggga cctgaaggtc atagcagggc 10380 cgatatcagc cgctttttca ccctttgacc ataaggtcgt catcagaaag gggtttgttt 10440 acaactacga cttccctgag tatggtgcta tgaaaccagg agcgttcggc gatattcaag 10500 catcctctct tgatgctaca gacatagtag cccgcactga catacggctg ctgaagcctt 10560 ctgtcaagaa catccacgtc ccctacaccc aagcagtatc agggtatgaa atgtggaaga 10620 acaactcagg acgacccctg caagaaacag caccatttgg atgtaaaatt gaagtggagc 10680 ctctgcgagc gtctaactgt gcttacgggc acattcctat ctcgattgac atccctgatg 10740 cagctttcgt gagatcatca gaatcaccaa caattttaga agttagctgc acagtagcag 10800 actgcattta ttctgcagac tttggtggtt ctctaacatt acagtacaaa gctgataggg 10860 agggacattg tccagttcac tcccactcca cgacagctgt tttgaaggaa gcgaccacac 10920 atgtgactgc cgtaggcagc ataacactac attttagcac atcgagccca caagcaaatt 10980 ttatagtttc gctatgcggc aagaagtcca cctgcaatgc tgaatgtaaa ccaccggccg 11040 accacataat tggagaaccg cataaagtcg accaagaatt ccaagcggca gtttccacaa 11100 catcttggaa ctggctgctt gcactgtttg ggggagcatc atccctcatt gttgtaggac 11160 ttatagtgtt ggtctgcagc tctatgctta taaacacacg tagatgactg agcgcggaca 11220 ctgacatagc ggtaaaaact cgatgtactt ccgaggaagc gtggtgcata atgccacgcg 11280 ccgcttgaca ctaaaactcg atgtatttcc gaggaagcac agtgcataat gctgtgcagt 11340 gtcacattaa tcgcatatca cactatatat taacaacact atatcacttt tataagactc 11400 actatgggtc tctaatatac actacacata ttttacttaa aaacactata cmcactttat 11460 aagttctttt ataatttttc ttttgttttt attttgtttt taaaatttc 11509 // ID GQ287642; SV 1; linear; genomic RNA; STD; VRL; 11509 BP. XX AC GQ287642; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate Kern, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11509 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11509 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; f0b08cfb1628c2a4a8aa069e5a1b8f63. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC4726549; 26807734. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11509 FT /organism="Western equine encephalitis virus" FT /host="Culex tarsalis" FT /isolate="Kern" FT /mol_type="genomic RNA" FT /country="USA:Kern County, California" FT /collection_date="1974" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7452 FT /codon_start=1 FT /transl_except=(pos:5605..5607,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPF5" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPF5" FT /protein_id="ACT75279.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITDKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRLGN FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSXE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLKLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSXETPRGHJRVTSYPGEEKIGSYAVLSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDVDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLRTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRCMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVXTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKILTAKYSGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKXNVCWAKALEPVLATANIVLXRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLAVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIIEAIHRKESVEILDDDKPVDIDLVRVHPNSALAGRPGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFLLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAEIILETPPPPVTTTVICEPTVPERIPSPAISRAPSAESLLSFSGVS FT FSSSATRSSTAWSDYDRRFVVTADVHQANTSTWSIPSAPGLDVQIPSDVSDSHWSVPSA FT SGFEVRTPSVQDLTAECAKPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRSTV FT SAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQK FT SVRQCKLQEPILDRAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMKA FT ITAERLISGLGTYLSSEVNPVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQENY FT PTVASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQ FT NTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTTE FT NVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQ FT VIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAGHFHHGDPVLE FT TDIASFDKSEDDAIAISAMMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMM FT KSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATWL FT NMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLSVEDTQDCDR FT RRALHDEAMRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGSPIT FT LYG" FT CDS 7497..11207 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPF4" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPF4" FT /protein_id="ACT75280.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRSPNPPPGPPPKKKKSAPKPKPTQPKKKKQQAKRTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASKYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTVWDPPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDVLEENVDNPNYDTLLENVLKCPSHRPKRSITDDFTLTSPYLGFCPYCRH FT STPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSM FT EKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGTAENSCTVERKIRRKFVGREE FT YLLPPIHGKQVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTRTKINGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVMKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACISKARRDCLTPYALAPNATVPTALVVLCCIRPTNAETLGETLNHLW FT FNNQPFLWAQLCIPLAALIILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCKFHTVIPSPQVKCCGSLECKASSRA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGFVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAVGSITLHFSTSSPQANFIVSL FT CGKKSTCNAECKPPADHIIGEPHKVDQEFQAAVSTTSWNWLLALFGGASSLIVVGLIVL FT VCSSMLINTRR" XX SQ Sequence 11509 BP; 3244 A; 2825 C; 2824 G; 2604 T; 12 other; atagggcacg gtatagagga acctacccta cagactaatc gatccaatat ggaaagaatt 60 cacgttgact tagatgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggacatt 240 ggaagtgcgc ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccctatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gacgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggctttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcttaccc tacttacaac acgaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggcttgg aaacctctca 720 atccttagga agaagaggct ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aagatagatc actgttacgt agctggcatc ttccaaacgt gttccacttg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgkga agggtacgtc 900 ataaaaaaaa ttacaatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgttgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgacgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaaa 1260 gaactagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaagc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcatc tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccgccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgkggaga caccacgagg acacmtcagg 1680 gtgacaagtt acccaggcga agagaagatt gggtcttacg ctgtactttc accccaggcg 1740 gtattgaata gtgaaaaact ggcgtgtatc cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggctgg gagatacaag gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cggcggtccc tgttcaagac ttccaggcat tgagtgagag cgctacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tacctgcatc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtcttcg acgttgacgc acgaaagtgt gttaagcgag aagacgcagg tccgttgtgc 2100 ctaaccggtg atctggtaga tccgccattt cacgagtttg cgtacgagag tcttaggacg 2160 cgaccagcag cacctcacaa agtcccaacc attggagtct atggagtgcc aggttcgggt 2220 aaatctggaa tcatcaaaag cgctgtgacc aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaatcat cagggatgta aggaggatga gatgtatgga tgttgctgct 2340 aggactgtag attctgtgct gctgaatggg gttaagcacc ccgttaacac tctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaagtgtacc ataaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc yatcgtctmc acgctctttt acgacaagcg aatgaagacg 2640 gttaacccat gtgctgacaa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga ttctaacctg tttcagagga tgggtgaaac agctacagat tgactataaa 2760 aatcatgaaa tcatgactgc ggctgcatcg caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga tccctggata 2940 aagatactta cagctaaata ttccggggat ttcacggctt cattggacga ctggcagcga 3000 gaacatgatg ccattatggc acgcgttctt gataagccgc agacagctga tgtgttccag 3060 aataaggkga acgtctgctg ggcgaaggct ctagagccag tcttggccac ggccaacatt 3120 gtgctgwyga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg cactgaactt cttttgcacc aggttctttg gagtagacct ggacagtggg 3240 ttgttttccg ctcctaccgt cgcacttact tatagggatc agcactggga taactcgcca 3300 gggaagaaca tgtatgggct taatagagag gtagcaaagg agttgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgtc ggttacccca ctcgttgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagcggat tcctatctaa gatgaagggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattccag ggaagaaagt ggagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctagatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatatt tgtcaatgtt aggaccccgt ataagaacca tcactaccaa 3720 cagtgcgagg atcacgctat ccaccacagc atgttaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggctataggg tatgggcttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtagcgcg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcgctgt agtgcttgac aacatctacc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtta atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctagactt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtcaat cgtcaacgct 4320 gaacggatta ctaaaatatc agtaccgcta ctgtcaaccg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgccgat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taatcgaggc cattcaccgc 4500 aaagaaagcg tcgaaatact ggatgatgac aagccggtag acattgactt ggtcagggtc 4560 catccaaaca gcgctttggc aggcagacct ggttactccg tcaatgaggg caagctgtat 4620 tcatacctgg aaggtacacg attccatcag accgccaagg acattgccga aatccatgca 4680 atgtggccca acaaatctga ggctaatgag cagatttgct tgtacatcct gggtgagagt 4740 atgtccagca tccgctccaa atgcccagta gaggagtcag aggcgtctgc tccacctcac 4800 acactgccgt gcctgtgtaa ttacgctatg acggctgagc gcgtatacag gttgcgctct 4860 gcgaagaaag aacagttcgc cgtatgctca tcattcctgt tgccgaagta caggatcaca 4920 ggcgtgcaga agctacaatg cagcaaacca gtcctgtttt caggcgtcgt accgccggct 4980 gtacacccca ggaagtacgc ggaaataatt ctagaaacgc caccaccgcc agtaacgaca 5040 accgtaatat gtgaacccac tgtgccagaa cgtataccca gtccggcgat ttctagagca 5100 ccaagtgcgg aatcactgct atcttttagc ggcgtctcgt tctctagctc tgccacacgc 5160 tcgtcaaccg cctggagcga ctatgacagg cggtttgtgg ttacagctga cgtgcatcaa 5220 gcgaacacat ctacgtggag catccctagt gctcctggct tggacgtcca aataccttct 5280 gacgtcagtg attcccactg gagtgttccg agtgcatcag gcttcgaagt gagaacacca 5340 tctgtacagg acctaactgc ggagtgtgca aagcctcgtg ggctggccga aataatgcaa 5400 gacttcaata cagccccttt ccagtttctt tcggaccaca gaccagtacc ggcaccacgg 5460 agacgcccca tcccatcacc tagatcgacg gtttccgcac ctccagttcc aaagccacgc 5520 aggactaagt accaacaacc accaggagtc gctagagcga tctcagaagc ggagttggac 5580 gagtacatcc gtcaacactc caattgacgg tatgaagcgg gagcgtatat tttctcatcg 5640 gaaacaggcc aaggtcacct tcaacagaaa tcagtacgtc aatgtaaact acaagaacct 5700 atattggacc gggccgtcca tgagaagtat tacgccccgc gcctcgatct cgaaagagag 5760 aaaatgttac agaagaaatt gcaattatgt gcctctgaag gaaatagaag caggtatcaa 5820 tcacgaaaag tagaaaatat gaaagcaatt acagcggagc gactcatttc tggattgggc 5880 acatacctat catcagaagt gaatcctgtc gagtgttaca gagtcaacta tcctgtacca 5940 atctactcgt caacggtaat taacaggttt acatctgcag aggtcgcggt taaaacgtgc 6000 aacttagtta tccaagagaa ttaccctaca gtagccagtt attgtataac agatgaatac 6060 gatgcgtatc ttgacatggt ggacggcgca tcgtgctgtc tagatacagc cactttttgt 6120 ccggctaaac tgagaagcta cccaaagaag catagctatt tgcagccaga gataagatca 6180 gccgtcccat cgcctataca gaatacatta caaaatgtat tggctgcagc tactaaaagg 6240 aattgcaacg ttacccaaat gcgagaatta cctgtcttag attcggcggc atttaacgtt 6300 gattgtttca agaaatacgc atgcaatgat gagtactggg atacctttcg cgataaccct 6360 attcggctaa ctacagagaa cgttacgcaa tatgtgacaa agctgaaagg gccgaaagca 6420 gcagcattgt ttgcgaaaac tcacaatcta aaaccgttgc aggagatacc aatggatcaa 6480 ttcgtcatgg atctaaaaag agatgtcaaa gttactcccg gcacgaaaca tacagaggag 6540 cggcctaagg tgcaggttat tcaggctgca gacccccttg ctaccgctta cctttgcggg 6600 atccaccggg aattagtccg tagactgaac gctgtgcttc tgccgaatat ccatactctc 6660 ttcgacatgt cagcggaaga ttttgatgcg attattgctg gacatttcca ccacggcgac 6720 ccagtattgg aaacggacat cgcgtcgttt gataaaagcg aagacgacgc tatcgccatt 6780 tcggcgatga tgatccttga ggacttaggc gtcgaccaac cgctcttaga tttgatagag 6840 gcggcgttcg gcaatatcac atctgtgcac ctacctacag gaacgaggtt taaatttggt 6900 gccatgatga aatccggcat gttcttaacg ctgtttgtca acacactagt caatatcatg 6960 attgctagca gagtactacg tgaacggtta accacgtcag cgtgcgcggc ctttatcggc 7020 gacgataaca tagtgcatgg tgtcgtctcc gacaccttga tggcggagag atgcgccact 7080 tggctgaaca tggaagtaaa aattattgat gcagtcattg gtatcaaagc accctacttc 7140 tgcgggggat ttatcctggt ggaccagata acaggcacag cctgcagggt cgcagaccct 7200 ctaaaaaggc tttttaagct tggaaaaccg ttgtcagttg aagacaccca agactgcgac 7260 cgccgccggg cactgcatga tgaagcaatg cgatggaaca gaatcggaat tacggacgag 7320 ttggtgaagg ccgtagaatc cagatacgag atcatactgg caggcctgat catcacgtct 7380 ctgtccacgt tagccgaaag cgttaagaac ttcaagagca taagagggag cccaatcacc 7440 ctctacggct gacctaaata ggtgacgtag tagacacgca cctacccatc gccataatgt 7500 ttccataccc tcagctgaac tttccaccag tttaccctac aaatccgatg gcttaccgag 7560 atccaaaccc tcctaggcgc cgctggaggc cgtttcggcc cccgctggct gctcaaatcg 7620 aagatcttag gaggtcgata gctaacttga ctttcaaaca acgatcacct aatccgccgc 7680 caggtccacc gccaaagaag aagaagagtg ctcctaagcc aaaacctact cagcctaaaa 7740 agaagaagca gcaagccaag aggacgaaac gtaagcctaa accagggaaa cgacagcgta 7800 tgtgtatgaa gttggagtcg gacaagacat ttccgatcat gctgaacggc caagtgaatg 7860 gatacgcttg cgttgtcgga ggaaggctga tgaaaccact ccacgttgaa ggaaaaattg 7920 ataatgagca attagcggcc gtgaaattga agaaggctag caagtacgac ttagagtatg 7980 gcgacgttcc ccagaatatg aaatcagaca cgctgcagta caccagtgac aaaccaccgg 8040 gcttctacaa ctggcaccat ggcgcagtcc agtatgagaa tgggagattc accgtaccga 8100 gaggagtggg cgggaaaggc gacagcggaa gaccgatcct ggacaacaga ggcagagttg 8160 tggctattgt tctaggaggt gcaaatgagg gcacgcgtac ggcgctttca gtggtcactt 8220 ggaaccagaa aggggtgacc gtttgggatc cccccgaagg ttctgaaccg tggtcactag 8280 ttacagcgct gtgcgtgctt tcgaatgtca ctttcccatg tgacaaacca cccgtgtgct 8340 attcactggc gccagaacga acactcgacg tgctcgaaga gaacgtcgac aatccaaatt 8400 acgacacgct gctggagaac gtcttgaaat gtccatcaca ccggcccaaa cgaagcatta 8460 ccgatgactt cacactgacc agtccctact tggggttctg cccgtattgc agacactcaa 8520 cgccgtgttt cagcccaata aaaattgaga acgtgtggga cgaatctgat gatggatcga 8580 ttagaatcca ggtctcggca caattcggct acaatcaggc aggcactgca gatgtcacta 8640 aattccgtta catgtctttc gaccacgacc atgacatcaa ggaagacagt atggagaaaa 8700 tagccatcag cacatccgga ccctgccgtc gtcttggcca caaagggtat ttcctgttag 8760 ctcaatgtcc tccaggtgac agtgtaaccg tcagtatcac gagcggaact gctgagaact 8820 catgcaccgt ggagagaaag atcaggagga agtttgtcgg tagagaggag tacttgctcc 8880 cacccatcca tggaaagcag gtaaagtgcc acgtttacga tcacttgaaa gagacgtctg 8940 ccgggtatat aaccatgcac aggccaggcc cacacgcgta taagtcctat ctggaggaag 9000 cgtcaggcga agtgtatatt aaaccacctt ctggcaagaa cgtcacctac gaatgtaagt 9060 gtggcgacta cagcacaggt atcgtgagca cgcgaacgaa gataaacggc tgcactaaag 9120 caaaacagtg cattgcctac aagagcgacc aaacgaaatg ggtcttcaac tcgccggatc 9180 ttattaggca cacagaccac tcagtgcaag gtaaactgca cattccattc cgcttgacac 9240 cgacagtctg cccggttccg ttagctcaca cgcctacagt catgaagtgg ttcaaaggca 9300 tcaccctcca cctgactgca acgcgaccaa cattgctgac aacgagaaaa ttggggctgc 9360 gagcagacgc aacagcagaa tggattacag ggactacatc caggaatttt tctgtggggc 9420 gagaagggct ggagtacgta tggggcaacc atgaaccggt cagagtctgg gcccaggagt 9480 cggcaccagg cgacccacat ggatggccgc atgagattat cattcactat tatcatcggc 9540 atccagtcta caccgtcatt gtgctgtgtg gtgtcgctct tgctatcctg gtaggcactg 9600 catcgtcagc agcttgtatc tccaaagcaa gaagagactg cctgacgcca tacgcgcttg 9660 caccgaacgc gacggtaccc acagcattag tggttttgtg ctgcattcgg ccaaccaacg 9720 ctgaaacact tggagaaact ttgaaccatc tgtggtttaa caaccaaccg tttctctggg 9780 cacagttgtg cattcctctg gcggctctta ttattctgtt ccgctgcttt tcatgctgca 9840 tgcctttttt attggttgca ggcgtctgcc tggggaaggt agacgccttc gaacatgcga 9900 ccactgtgcc aaatgttccg gggatcccgt ataaggcgtt ggtcgaacgt gcaggttacg 9960 cgccacttaa cctggagatc actgttgtct catcggaatt aacaccctca actaataagg 10020 agtacgtgac ctgcaaattc cacacagtca ttccttcacc acaagttaaa tgctgcgggt 10080 ccctcgagtg taaggcatcc tcaagggcgg attacacatg ccgcgttttt ggcggtgtgt 10140 accctttcat gtggggaggc gcacaatgct tctgtgacag tgagaacaca caactgagtg 10200 aggcatacgt cgagttcgct ccggactgca ctatagatca cgcagtcgca ctaaaagttc 10260 atacagctgc tctgaaagtc ggcctgcgta tagtgtacgg taataccacc gcgcacctgg 10320 atacgttcgt caacggcgtc acaccaggtt cctcacggga cctgaaggtc atagcagggc 10380 cgatatcagc cgctttttca ccctttgacc ataaggtcgt catcagaaag gggtttgttt 10440 acaactacga cttccctgag tatggtgcta tgaaaccagg agcgttcggc gatattcaag 10500 catcctctct tgatgctaca gacatagtag cccgcactga catacggctg ctgaagcctt 10560 ctgtcaagaa catccacgtc ccctacaccc aagcagtatc agggtatgaa atgtggaaga 10620 acaactcagg acgacccctg caagaaacag caccatttgg atgtaaaatt gaagtggagc 10680 ctctgcgagc gtctaactgt gcttacgggc acattcctat ctcgattgac atccctgatg 10740 cagctttcgt gagatcatca gaatcaccaa caattttaga agttagctgc acagtagcag 10800 actgcattta ttctgcagac tttggtggtt ctctaacatt acagtacaaa gctgataggg 10860 agggacattg tccagttcac tcccactcca cgacagctgt tttgaaggaa gcgaccacac 10920 atgtgactgc cgtaggcagc ataacactac attttagcac atcgagccca caagcaaatt 10980 ttatagtttc gctatgcggc aagaagtcca cctgcaatgc tgaatgtaaa ccaccggccg 11040 accacataat tggagaaccg cataaagtcg accaagaatt ccaagcggca gtttccacaa 11100 catcttggaa ctggctgctt gcactgtttg ggggagcatc atccctcatt gttgtaggac 11160 ttatagtgtt ggtctgcagc tctatgctta taaacacacg tagatgactg agcgcggaca 11220 ctgacatagc ggtaaaaact cgatgtactt ccgaggaagc gtggtgcata atgccacgcg 11280 ccgcttgaca ctaaaactcg atgtatttcc gaggaagcmc agtgcataat gctgtgcagt 11340 gtcmcattaa tcgcatatca cactatatat taacaacact atatcacttt tataagactc 11400 actatgggtc tctaatatac actacacata ttttacttaa aaacmctata cmcactttat 11460 aagttctttt ataatttttc ttttgttttt attttgtttt taaaatttc 11509 // ID GQ287643; SV 1; linear; genomic RNA; STD; VRL; 11508 BP. XX AC GQ287643; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate Montana-64, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11508 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11508 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; a293e6ec5354901b4888c5b5bdc1d672. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4726549; 26807734. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11508 FT /organism="Western equine encephalitis virus" FT /host="horse" FT /isolate="Montana-64" FT /mol_type="genomic RNA" FT /country="USA:Montana" FT /isolation_source="brain" FT /collection_date="1967" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7452 FT /codon_start=1 FT /transl_except=(pos:5605..5607,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPF7" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPF7" FT /protein_id="ACT75281.1" FT /translation="MERVHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITDKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRLGK FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLKLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSXETPRGHJRVTSYPGEEKIGSYAILSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDIDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLKTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRRMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKTLTAKYPGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKVNVCWAKALEPVLATANIVLTRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLGVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIIEAIHRKESVEILDDDKPVDIDLVRVHPNSSLAGRPGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFLLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAEIILETPPPPATTTVICEPTVPERIPSPVISRAPSAESLLSFGGVS FT FSSSATRSSTAWSDYDRRFVVTADVHQANTSTWSIPSAPGLDVQLPSDVTDSHWSIPSA FT SGFEVRTPSVQDLTAECAKPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRSTA FT SAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQK FT SVRQCKLQEPILDRAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMKA FT ITAERLISGLGTYLSSEVNPVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQENY FT PTVASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQ FT NTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTTE FT NVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQ FT VIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAEHFHHGDPVLE FT TDIASFDKSEDDAIAISALMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMM FT KSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATWL FT NMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLPVDDTQDCDR FT RRALHDEAMRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGSPIT FT LYG" FT CDS 7497..11207 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPF8" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPF8" FT /protein_id="ACT75282.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRSPNPPPGPPPKKKKSAPKPKPTQPKKKKQQAKRTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASMYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTIRDTPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDVLEENVDNPNYDTLLENVLKCPSRRPKRSITDDFTLTSPYLGFCPYCRH FT STPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSM FT EKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGASENSCTVEKKIRRKFVGREE FT YLFPPVHGKLVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTRTKMNGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACIAKARRDCLTPYALAPNATVPTALAVLCCIRPTNAETFGETLNHLW FT FNNQPFLWAQLCIPLAALVILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCKFHTVIPSPQVKCCGSLECKASSKA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGLVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAVGSITLHFSTSSPQANFIVSL FT CGKKSTCNAECKPPADHIIGEPHKVDQEFQAAVSKTSWNWLLALFGGASSLIVVGLIVL FT VCSXMLINTRR" FT 3'UTR 11208..11508 XX SQ Sequence 11508 BP; 3254 A; 2852 C; 2815 G; 2578 T; 9 other; atagggcacg gtatagagga acctacccta caaactaatc gatccaatat ggaaagagtt 60 cacgttgact tagatgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggacatt 240 ggaagtgcac ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccctatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gatgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggttttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcctaccc tacttacaac acgaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggcttgg aaaactctca 720 atccttagga agaagaggct ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aagatagatc actgttacgt agctggcatc ttccaaacgt gttccacttg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgtga agggtacgtc 900 atcaaaaaga taacgatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgctgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgacgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaaa 1260 gaactagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaagc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcatc tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccaccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgkggaga caccacgagg acacmtcagg 1680 gtgacaagtt acccgggcga agagaagatt gggtcttacg ctatactttc accccaggcg 1740 gtattgaata gtgaaaaact ggcgtgtatc cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggctgg gagatacaaa gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cggcggtccc tgttcaagac tttcaggcac tgagtgagag cgctacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tacctgcacc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtcttcg acattgacgc acgaaagtgt gttaagcgag aagacgcagg tcccttgtgc 2100 ctaaccggtg atctggtaga tccaccattt cacgagtttg cgtacgagag tctcaagaca 2160 cgaccagcag cacctcacaa agtcccaacc atcggagtct atggagtgcc aggttcaggt 2220 aaatctggaa tcatcaaaag cgctgtgact aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaatcat cagggatgta aggaggatga gacgtatgga tgttgctgct 2340 aggactgtcg attcagtgct tctaaatggg gttaagcacc ccgttaacac tctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaagtgtacc ataaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc catcgtctcc acgctcttct acgacaagcg aatgaagacg 2640 gttaacccat gtgctgacaa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga ttctaacctg tttcagagga tgggtgaaac agctacagat tgactataaa 2760 aatcatgaaa tcatgactgc ggctgcatca caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga tccctggata 2940 aagacactta cagctaaata tcccggggat ttcacggctt cattggacga ctggcagcgc 3000 gaacacgacg ccattatggc acgcgttctt gataagccgc agacagctga tgtgttccag 3060 aataaggtga acgtctgctg ggcgaaggct ttagagccag tcttggccac ggccaacatt 3120 gtgctgacga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg cattgaactt cttttgcacc aggttctttg gagtagacct ggacagtggg 3240 ttgttttccg ctcctaccgt cgcacttact tacagggatc agcactggga taactcgcca 3300 gggaagaaca tgtatgggct taatagagag gtagcaaagg agttgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgcc ggttgcccca ctcgctgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagcggat tcctatctaa gatgaagggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattccag ggaagaaagt agagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctcgatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatatt tgtcaatgtt aggaccccgt acaagaacca tcactaccaa 3720 cagtgcgagg atcacgctat ccaccacagc atgctaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggctataggg tatgggcttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtggcacg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcggtgt agtgcttgac aacatctacc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtta atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctagactt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtccat cgtcaacgct 4320 gagcggatta ctaaaatatc agtaccgcta ctgtcaaccg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgccgat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taatcgaggc cattcaccgc 4500 aaagaaagcg tcgaaatact ggatgatgac aagccagtag acattgactt ggtcagggtc 4560 cacccaaaca gctctttggc aggcagacca ggttactccg tcaatgaggg caagctgtat 4620 tcatacctgg aaggtacacg attccatcag accgccaagg acattgccga aatccatgca 4680 atgtggccca acaaatctga ggctaatgag cagatttgct tgtacatcct gggggagagt 4740 atgtccagca tccgctccaa atgcccagta gaggagtcag aggcgtctgc tccacctcac 4800 acacttccat gcctgtgtaa ttacgctatg acggctgagc gcgtatacag gttgcgctct 4860 gcgaagaaag aacagttcgc cgtatgctca tcattcctgt tgccgaagta caggatcaca 4920 ggcgtgcaga agctacagtg cagcaaacca gtcctgtttt caggcgtcgt accaccggct 4980 gtacacccca ggaagtacgc ggaaataatt ctagaaacgc caccaccgcc agcaacgaca 5040 accgtaatat gtgaaccaac tgtgccagaa cgtataccca gtccggtgat ttctagagca 5100 ccaagtgcgg aatcactgct atcgtttggc ggcgtctcgt tctctagctc tgccacacgc 5160 tcgtcaaccg cctggagcga ctatgacagg cggtttgtgg ttacagctga cgtgcatcaa 5220 gcgaacacgt ctacgtggag catccctagt gctcctggct tggacgtcca gctgccttct 5280 gacgtcactg attcccactg gagtattcca agtgcatcag gctttgaagt gagaacacca 5340 tctgtacagg acctaactgc ggagtgtgcg aagcctcgtg gactggccga aataatgcaa 5400 gacttcaata ctgctccttt ccagtttctt tcggaccaca gaccagtacc ggcaccacgg 5460 agacgcccca tcccatcacc tagatcgacg gcttccgcac ctccagtccc aaagccacgc 5520 aggactaagt accaacaacc accaggagtc gctagagcga tctcagaagc ggagttggac 5580 gagtacatcc gtcaacactc caactgacgg tacgaagcgg gagcgtatat tttctcatcg 5640 gaaacaggcc aaggtcacct tcaacagaaa tcagtacgtc aatgtaaact acaagaacct 5700 atattggatc gggccgtcca tgagaagtat tacgccccgc gcctcgatct cgaaagagag 5760 aaaatgttac agaagaaact gcaattatgc gcctctgaag gaaatagaag caggtatcaa 5820 tcacgaaaag tagaaaatat gaaagcaatt acagcggagc gactcatttc tggattgggc 5880 acatatctat catcagaagt gaatcctgtc gagtgttaca gagtcaatta tcctgtacca 5940 atctactcgt caacggtaat taacaggttt acatctgcag aggtcgcggt taaaacgtgc 6000 aacttagtca tccaagagaa ttaccctaca gtagccagtt attgtataac agatgaatac 6060 gatgcgtatc ttgacatggt ggacggcgca tcgtgctgtc tagataccgc cactttttgt 6120 ccggctaaac tgagaagcta cccaaagaag catagctatt tgcagccaga gataagatca 6180 gccgtcccat cgcctataca gaatacatta caaaatgtat tggctgcagc tactaaaagg 6240 aattgcaacg ttacccaaat gcgagaatta cctgtcttag attcggcggc atttaacgtt 6300 gattgtttca agaaatacgc atgcaatgat gagtattggg atacctttcg cgataaccct 6360 attcggctaa ctacagagaa cgttacgcaa tatgtgacaa agctgaaagg gccgaaagca 6420 gcagcattgt tcgcgaaaac tcacaatcta aaaccgttgc aggagatacc aatggatcaa 6480 ttcgtcatgg atctaaaaag agatgtcaaa gttactcccg gcacgaaaca tacagaggag 6540 cggcctaagg tgcaggttat tcaggctgca gatccccttg ctaccgctta cctttgcggg 6600 atccatcggg aattagtccg tagactgaat gctgtgcttc tgccgaatat ccatactctc 6660 ttcgacatgt cagcggaaga ttttgatgcg attattgctg aacatttcca ccacggcgac 6720 ccagtattgg aaacggacat cgcgtcgttt gataaaagcg aagacgacgc tatcgccatt 6780 tcggcgttga tgatccttga ggacttaggc gtcgaccaac cgctcttaga tttgatagag 6840 gcggcgttcg gcaatatcac atctgtgcac ctacctacag gaacgaggtt taaatttggt 6900 gccatgatga aatccggtat gttcttaacg ctgtttgtca acacactagt caatatcatg 6960 attgctagca gagtactacg tgaacggtta accacgtcag cgtgcgcggc ctttatcggc 7020 gacgataaca tagtgcatgg tgtcgtctcc gacaccttga tggcggagag atgcgccact 7080 tggctgaaca tggaagtaaa aattattgat gcagttattg gtatcaaagc accctacttc 7140 tgcgggggat ttatcctggt ggaccagata acaggcacmg cctgcagggt cgcagaccct 7200 ctaaaaaggc tttttaagct tggaaaaccg ttgccagtcg atgacaccca agactgcgac 7260 cgccgccggg cactgcatga tgaagcaatg cgatggaaca gaattggaat aacggacgag 7320 ttggtgaagg ccgtagaatc cagatacgag atcatactgg caggcctgat catcacgtct 7380 ctgtccacgt tagccgaaag cgttaagaac ttcaagagca taagagggag cccaatcacc 7440 ctctacggct gacctaaata ggtgacgtag tagacacgca cctacccacc gccaggatgt 7500 ttccataccc tcagctgaac tttccaccag tttaccctac aaatccgatg gcttaccgag 7560 atccaaaccc tcctaggcgc cgctggaggc cgtttcggcc cccgctggct gctcaaatcg 7620 aagatcttag gaggtcgata gccaacttaa ctttcaaaca acgatcacct aatccgccgc 7680 caggtccacc gccaaagaag aagaagagtg ctcctaagcc aaaacctact cagcctaaaa 7740 agaagaagca gcaagccaag aggacgaaac gcaagcctaa accagggaaa cgacagcgta 7800 tgtgtatgaa gttggagtcg gacaagacat ttccgatcat gctgaacggc caagtgaatg 7860 gatacgcttg cgttgtcgga ggaaggctga tgaaaccact ccacgttgaa ggaaaaatcg 7920 ataatgagca attagcggcc gtgaaattga agaaggctag catgtacgac ttggagtatg 7980 gcgacgttcc ccagaatatg aaatcagaca cgctgcagta caccagcgac aaaccaccgg 8040 gcttctacaa ctggcaccac ggcgcagtcc agtatgagaa tgggagattc accgtaccga 8100 gaggagtggg cgggaaaggc gacagcggaa gaccaatcct ggacaacaga ggcagagttg 8160 tggctattgt tctaggaggt gcaaatgagg gcacgcgtac ggcgctttca gtggtcactt 8220 ggaaccagaa aggggtgacc attagggata cccccgaagg ttctgaaccg tggtcactag 8280 ttacagcgct gtgcgtgctt tcgaatgtca cgttcccatg cgacaaacca cccgtgtgct 8340 attcactggc gccagaacga acactcgacg tgctcgaaga gaacgtcgac aatccaaatt 8400 acgacacgct gctggagaac gtcttgaaat gtccatcacg ccggcccaaa cgaagcatta 8460 ccgatgactt cacactgacc agtccctacc tggggttctg cccgtattgc agacactcaa 8520 cgccgtgttt cagcccaata aaaattgaga acgtgtggga cgaatctgat gatggatcga 8580 ttagaatcca ggtctcggca caattcggct acaatcaggc aggcactgca gatgtcacca 8640 aattccgtta catgtctttc gaccacgacc atgacatcaa ggaagacagt atggagaaaa 8700 tagctatcag cacatctgga ccctgccgtc gtcttggcca caaagggtac ttcctgttag 8760 ctcaatgtcc tccaggtgac agtgtaaccg tcagtatcac gagcggagca tctgagaatt 8820 catgcaccgt ggagaaaaag atcaggagga agtttgtcgg tagagaggag tacttgttcc 8880 cacccgtcca tggaaagctg gtaaagtgcc acgtttacga tcatttgaag gagacgtctg 8940 ccgggtacat aaccatgcac aggccaggcc cacacgcgta taaatcctat ctggaggaag 9000 cgtcaggcga agtgtacatt aaaccacctt ctggcaagaa cgtcacctac gaatgtaagt 9060 gtggcgacta cagcacaggt attgtgagca cgcgaacgaa gatgaacggc tgcactaaag 9120 caaaacagtg cattgcctac aagagcgacc aaacgaaatg ggtcttcaac tcgccggatc 9180 ttattaggca cacagaccac tcagtgcaag gtaaactgca cattccattc cgcttgacac 9240 cgacagtctg cccggttccg ttagctcaca cgcctacagt cacgaagtgg ttcaaaggca 9300 tcaccctcca cctgactgca acgcgaccaa cattgctgac aacgagaaaa ttggggctgc 9360 gagcagacgc aacagcagaa tggattacag ggactacatc caggaatttt tctgtggggc 9420 gagaagggct ggagtacgta tggggcaacc atgaaccagt cagagtctgg gcccaggagt 9480 cggcaccagg cgacccacat ggatggccgc atgagatcat catccactat tatcatcggc 9540 atccagtcta cactgtcatt gtgctgtgtg gtgtcgctct tgctatcctg gtaggcactg 9600 catcgtcagc agcttgtatc gccaaagcaa gaagagactg cctgacgcca tacgcgcttg 9660 caccgaacgc aacggtaccc acagcattag cggttttgtg ctgcattcgg ccaaccaacg 9720 ctgaaacatt tggagaaact ttgaaccatc tgtggtttaa caaccaaccg tttctctggg 9780 cacagttgtg cattcctctg gcagctcttg ttattctgtt ccgctgcttt tcatgctgca 9840 tgcctttttt attggttgca ggcgtctgcc tggggaaggt agacgccttc gaacatgcga 9900 ccactgtgcc aaatgttccg gggatcccgt ataaggcgtt ggtcgaacgc gcaggttacg 9960 cgccacttaa cctggagatt acggtcgtct catcggaatt aacaccctca actaacaagg 10020 agtacgtgac ctgcaaattc cacacagtca ttccttcacc acaagttaaa tgctgcgggt 10080 ccctcgagtg taaggcatcc tcaaaagcgg attacacatg ccgcgttttt ggcggtgtgt 10140 accctttcat gtggggaggc gcacaatgct tctgtgatag tgagaacaca caactgagtg 10200 aggcatacgt cgagttcgct ccagactgca ctatagatca cgcagtcgca ctaaaagttc 10260 acacagctgc tctgaaagtc ggcctgcgta tagtatacgg caataccacc gcgcacctgg 10320 atacgttcgt caatggcgtc acgccaggtt cctcacggga cctgaaggtc atagcagggc 10380 cgatatcagc cgctttttca ccctttgacc ataaggtcgt catcagaaag gggcttgttt 10440 acaactacga cttccctgag tatggagcta tgaaaccagg agcgttcggc gatattcaag 10500 catcctcgct tgatgctaca gacatagtag cccgcactga catacggctg ctgaagcctt 10560 ctgtcaagaa catccacgtc ccctacaccc aagcagtatc agggtatgaa atgtggaaga 10620 acaactcagg acgacccctg caagaaacag caccatttgg atgtaaaatt gaagtggagc 10680 ctctgcgagc gtctaactgt gcttacgggc acatccctat ctcgattgac atccctgatg 10740 cagcttttgt gagatcatca gaatcaccaa caattttaga agttagctgc acagtagcag 10800 actgcattta ttctgcagac tttggcggtt ctctaacatt acagtacaaa gctgacaggg 10860 agggacattg tccagttcac tcccactcca cgacagctgt tttgaaggaa gcgaccacac 10920 atgtgactgc cgtaggcagc ataacactac attttagcac atcgagccca caagcaaatt 10980 ttatagtttc gctatgcggc aagaagtcca cctgcaatgc tgaatgtaaa ccaccggccg 11040 accacataat tggagaacca cataaagtcg accaagaatt ccaggcggca gtttccaaaa 11100 catcttggaa ctggctgctt gcactgtttg ggggagcatc atccctcatt gttgtaggac 11160 ttatagtgtt ggtytgcagc tytatgctta taaacacacg tagatgactg agcgcggaca 11220 ctgacatagc ggtaaaactc gatgtacttc cgaggaagcg tggtgcataa tgccmcgcgc 11280 cgcttgacac taaaactcga tgtatttccg aggaagcaca gtgcataatg ctgtgcagtg 11340 tcacattaat cgtatatcmc actacatatt aacaacacta tatcactttt atgagactca 11400 ctatgggtct ytaatataca ctacacatat tttacttaaa aacactatac mcactttata 11460 aattctttta taatttttct tttgttttta ttttgttttt aaaatttc 11508 // ID GQ287644; SV 1; linear; genomic RNA; STD; VRL; 11508 BP. XX AC GQ287644; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate BFS-2005, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11508 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11508 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; 07e2044ad9728fd13949e333799ce72f. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4726549; 26807734. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11508 FT /organism="Western equine encephalitis virus" FT /host="Culex tarsalis" FT /isolate="BFS-2005" FT /mol_type="genomic RNA" FT /country="USA:Kern County, California" FT /collection_date="1974" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7452 FT /codon_start=1 FT /transl_except=(pos:5605..5607,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPF9" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPF9" FT /protein_id="ACT75283.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITNKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRFGK FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLKLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSXETPRGHIRVTSYPGEEKIGTYAILSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDIDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLKTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRRMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKTLTAKYPGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKVNVCWAKALEPVLATANIVLTRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLGVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNSERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRITEAIHRKESVEILDDDKPVDIDLVRVHPNSSLAGRPGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFLLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAEIILETPPPPATTTVICEPTVPERIPSPVISRAPSAESLLSFGGVS FT FSSSATRSSTAWSNYDRRFVVTADVHQAHTSTWSIPSAPGLDVQLPSDDTDSHWSIPSA FT SGFEVRTPSVQDLTAECAKPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRSTA FT SAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQK FT SVRQCKLQEPILERAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMKA FT ITAERLISGLGTYLSSEVNSVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQENY FT PTVASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQ FT NTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTTE FT NVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQ FT VIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAEHFHHGDPVLE FT TDIASFDKSEDDAIAISALMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMM FT KSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATWL FT NMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLPVDDTQDCDR FT RRALHDEATRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGNPIT FT LYG" FT CDS 7497..11207 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPG0" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPG0" FT /protein_id="ACT75284.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRSPNPPPGPPPKKKKSAPKPKPTQPKKKKQQAKKTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASMYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTIKDTPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDVLEENVDNPNYDTLLENVLKCPSRRPKRSITDDFTLTSPYLGFCPYCRH FT SAPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSM FT DKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGASENSCTVEKKIRRKFVGREE FT YLFPPVHGKLVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTRTKMNGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACIAKARRDCLTPYALAPNATVPTALAVLCCIRPTNAETFGETLNHLW FT FNNQPFLWAQLCIPLAALVILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCRFHTVIPSPQVKCCGSLECKASSKA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGLVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAVGSITLHFSTSSPQANFIVSL FT CGKKTTCNAECKPPADHIIGEPHKVDQEFQAAVSKTSWNWLLALFGGASSLIVVGLIVL FT VCSSMLINTRR" XX SQ Sequence 11508 BP; 3271 A; 2859 C; 2802 G; 2574 T; 2 other; atagggcacg gtatagagga acctacccta caaacaaatc gatccaatat ggaaagaatt 60 cacgttgact tagacgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggacatt 240 ggaagtgcgc ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccctatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccaaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gacgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggttttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcctaccc tacttacaac acaaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggtttgg aaaactctca 720 atccttagga agaagagact ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aagatagatc actgttacgt agctggcatc ttccaaacgt gttccacctg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgtga agggtacgtc 900 atcaaaaaga taacgatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgctgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgacgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaaa 1260 gagctagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaagc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcatc tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccaccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgkggaga caccacgagg acacatcagg 1680 gtgacaagtt acccaggtga agagaagatt gggacttacg ctatactttc accccaggcg 1740 gttttgaata gtgaaaaact ggcgtgtatc cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggctgg gcgatataaa gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cggcggtccc tgttcaagac tttcaggcac tgagtgagag cgccacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tacctgcacc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtcttcg acattgacgc acgaaagtgt gttaagcgag aagacgcagg tcccttgtgc 2100 ctaactggtg atctggtaga tccaccattt cacgagtttg cgtacgagag tctcaagaca 2160 cgaccagcag cacctcacaa agtcccaacc atcggagtct atggagtgcc aggttcaggt 2220 aaatctggaa tcatcaaaag cgctgtgact aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaattat cagggatgta aggaggatga gacgtatgga tgttgctgct 2340 aggactgttg attcagtgct tctaaatggg gttaagcacc ccgttaacac tctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaagtgtacc acaaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc cattgtctcc acgctcttct acgacaagcg aatgaagacg 2640 gttaacccat gtgctgacaa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga tcctaacctg tttcagagga tgggtgaaac agctacagat tgactataaa 2760 aatcatgaaa tcatgactgc ggctgcatcg caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga cccctggata 2940 aagacactta cagctaaata tcccggggat ttcacggctt cattggacga ctggcagcgc 3000 gaacacgacg ccattatggc acgtgttctt gataagccgc agacagctga tgtgttccag 3060 aataaggtga acgtctgctg ggcgaaggct ttagagccag tcttggccac ggccaacatt 3120 gtgctgacga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg ctctgaactt cttttgcacc aggttctttg gagtagacct ggacagtggg 3240 ttgttttccg ctcctaccgt cgcacttact tacagggatc agcactggga caactcgcca 3300 gggaagaaca tgtatggact taatagagag gtagcaaagg agctgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgcc ggttgcccca ctcgctgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagtggat tcctatctaa gatgaagggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattcctg ggaagaaagt agagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctcgatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatatt tgtcaatgtt aggaccccgt acaagaacca tcactaccaa 3720 cagtgcgagg atcacgctat acaccacagc atgctaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggctataggg tatgggcttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtggcacg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcggtgt agtgcttgac aacatctacc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtca atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctagactt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtccat cgtcaactct 4320 gagcggatta ctaaaatatc agtaccgcta ctgtcaactg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgcagat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taaccgaggc cattcaccgc 4500 aaagaaagcg tcgaaatact ggatgatgac aagccagtag acatcgactt ggtcagggtc 4560 cacccaaaca gctctttggc aggcagacca ggttactccg tcaatgaggg caagctgtat 4620 tcatacctgg aaggtacacg attccatcag accgccaagg acattgccga aatccatgca 4680 atgtggccca acaaatctga ggctaatgag cagatttgct tgtacatcct gggggagagt 4740 atgtccagca tccgctccaa atgcccagta gaggagtcag aggcgtctgc tccacctcac 4800 acacttccat gcctgtgtaa ttacgctatg acggctgagc gcgtatacag gttgcgctct 4860 gcgaagaaag aacagttcgc cgtatgctca tcattcctgt tgccgaagta caggatcaca 4920 ggcgtgcaga agctacagtg cagcaaacca gtcctgtttt caggcgtcgt accaccggct 4980 gtacacccca ggaagtacgc ggaaataatt ctagaaacgc caccaccgcc agcaacgaca 5040 accgtaatat gtgaaccaac tgtgccagaa cgtataccca gtccggtgat ttctagagca 5100 ccaagtgcgg aatcactgct atcgtttggc ggcgtctcgt tctctagctc tgccacacgc 5160 tcgtcaaccg cctggagcaa ctatgacagg cggtttgtgg ttacagctga cgtgcatcaa 5220 gcgcacacgt ctacgtggag catccctagt gctcctggct tggacgtcca gctgccttct 5280 gacgatactg attcccactg gagtattcca agtgcatcag gctttgaagt gagaacacca 5340 tctgtacagg acctaactgc agagtgtgcg aagcctcgtg gactggccga aataatgcaa 5400 gactttaata ctgctccttt ccagtttctt tcggaccaca gaccagtacc ggcaccacgg 5460 agacgcccca tcccatcacc cagatcgacg gcttccgcac ctccagttcc aaagccacgc 5520 agaactaagt accaacaacc accaggagtc gctagagcga tctcagaagc ggagttggac 5580 gagtacatcc gtcaacactc caactgacgg tatgaagcgg gagcgtatat tttctcatcg 5640 gaaacaggcc aaggtcacct tcaacagaaa tcagtacgtc aatgtaaact acaagaacct 5700 atattggaac gggccgtcca tgagaagtat tacgccccgc gcctcgatct cgaaagagag 5760 aagatgttac agaagaaact gcaattatgc gcctctgaag gaaatagaag caggtatcaa 5820 tcacgaaaag tagaaaatat gaaagcaatt acagcggagc gactcatttc tggattgggc 5880 acatatctat catcagaagt gaattctgtc gagtgttaca gagtcaatta ccctgtacca 5940 atctactcgt caacggtaat taacaggttt acatctgcag aggtcgcggt taaaacgtgc 6000 aacttagtca tccaagagaa ttaccctaca gtagccagtt attgtataac agatgaatac 6060 gatgcgtatc ttgacatggt ggacggcgca tcgtgctgtc tagatacmgc cactttttgt 6120 ccggctaaac tgagaagcta cccaaagaag catagctact tgcagccaga gataagatca 6180 gccgtcccat cgcctataca gaatacatta caaaacgtat tggctgcagc tactaaaagg 6240 aattgcaacg ttacccaaat gcgagaacta ccagtcttag attcggcggc atttaacgtt 6300 gattgtttca agaaatacgc atgcaatgat gagtattggg atacctttcg cgataaccct 6360 attcggctaa ctacagagaa cgttacgcaa tacgtgacaa agctgaaagg gccgaaagca 6420 gcagcattgt tcgcgaaaac tcacaatcta aaaccgttgc aggagatacc aatggatcaa 6480 ttcgtcatgg atctaaaaag agatgtcaaa gttactcccg gcacgaaaca tacagaggag 6540 cggcctaagg tgcaggttat tcaggctgca gatccccttg ctaccgctta cctttgcggg 6600 atccatcgag aattagtccg tagactgaat gctgtgcttc tgccgaatat ccatactctc 6660 ttcgacatgt cagcggaaga ttttgatgcg attattgctg aacatttcca ccacggcgac 6720 ccagtattgg aaacggacat cgcgtcgttt gataaaagcg aagacgacgc tatcgccatt 6780 tcggcgttga tgatccttga ggacttaggc gtcgaccaac cgctcttaga tctgatagag 6840 gcggcgttcg gcaatatcac atctgtgcac ctacctacag gaacgaggtt taaatttggt 6900 gccatgatga aatccggtat gttcttaacg ctgtttgtca acacactagt caatatcatg 6960 attgctagca gagtactacg tgaacggtta accacgtcag cgtgcgcggc ctttatcggc 7020 gacgataaca tagtgcatgg tgtcgtctcc gacaccttga tggcggagag atgcgccact 7080 tggctgaaca tggaagtaaa aattattgat gcagttattg gtatcaaagc accctacttc 7140 tgcgggggat tcatcctggt ggatcagata accggtacag cctgtagggt cgcagaccct 7200 ctaaaaaggc tttttaagct tggaaaacca ttgccagtcg atgacaccca agactgtgac 7260 cgccgccggg cactgcatga tgaagcaaca cgatggaaca gaattggaat tacggacgag 7320 ttggtgaagg ccgtagaatc cagatacgag atcatactgg caggcctgat catcacgtcc 7380 ctgtccacgt tagccgaaag cgttaagaac ttcaagagca taagagggaa cccaatcacc 7440 ctctacggct gacctaaata ggtgacgtag tagacacgca cctacccacc gccaaaatgt 7500 ttccataccc tcagctgaac tttccaccag tttaccctac aaatccgatg gcttaccgag 7560 atccaaaccc tcctaggcgc cgctggaggc cgtttcggcc cccgctggct gctcaaatcg 7620 aagatcttag gaggtcgata gccaacttaa ctttcaaaca acgatcacct aatccgccgc 7680 caggtccacc gccaaagaag aagaagagtg ctcctaagcc aaaacctact cagcctaaaa 7740 agaagaagca gcaagccaag aagacgaaac gcaagcctaa accagggaaa cgacagcgta 7800 tgtgtatgaa gttggagtcg gacaagacat ttccgatcat gctgaacggc caagtgaatg 7860 gatacgcttg cgttgtcgga ggaaggctga tgaaaccact ccacgttgaa ggaaaaatcg 7920 ataatgagca attagcggcc gtgaaattga agaaggctag catgtacgac ttggagtatg 7980 gcgacgttcc ccagaatatg aaatcagaca cgctgcagta caccagcgac aaaccaccgg 8040 gcttttacaa ctggcaccac ggcgcagtcc agtatgagaa tgggagattc accgtaccga 8100 gaggagtggg cgggaaaggc gacagtggaa gaccgatcct ggacaacaga ggcagagttg 8160 tggctatcgt tctaggaggt gcaaacgagg gcacgcgtac ggcgctttca gtggtcactt 8220 ggaaccagaa aggggtgacc atcaaggata cccccgaagg ttctgaaccg tggtcactag 8280 ttacagcgct gtgcgtgctt tcgaatgtca cgttcccatg cgacaaacca cccgtgtgct 8340 attcactggc gccagaacga acactcgacg tgctcgaaga gaacgtcgac aatccaaatt 8400 acgacacgct gctggagaac gtcttgaaat gtccatcacg ccggcccaaa cgaagcatta 8460 ccgatgactt cacactgacc agtccctacc tggggttctg cccgtattgc agacactcag 8520 cgccgtgttt cagcccaata aaaattgaga acgtgtggga cgaatctgat gatggatcga 8580 ttagaatcca ggtctcggca caattcggct acaatcaggc aggcactgca gatgtcacca 8640 aattccgtta catgtctttc gaccacgacc atgacatcaa ggaagacagt atggataaaa 8700 tagctattag cacatctgga ccctgccgtc gtcttggcca caaagggtac ttcctgttag 8760 ctcaatgtcc tccaggtgac agtgtaaccg tcagtatcac gagcggagca tctgagaatt 8820 catgcaccgt ggagaaaaag atcaggagga agtttgtcgg tagagaggag tacttgttcc 8880 cacctgtcca tggaaagctg gtaaagtgcc acgtttacga tcacttgaag gagacgtctg 8940 ccggatacat aaccatgcac aggccaggcc cacacgcgta taagtcctat ctggaggaag 9000 cgtcaggcga agtgtacatt aaaccacctt ctggcaagaa cgtcacctac gaatgtaagt 9060 gtggcgacta cagcacaggt attgtgagca cgcgaacgaa gatgaacggc tgcactaaag 9120 caaaacagtg cattgcctac aagagcgacc aaacgaaatg ggtcttcaac tcgccggatc 9180 ttattaggca cacagaccac tcagtgcaag gtaaactgca cattccattc cgcttgacac 9240 cgacagtctg cccggttccg ttagctcaca cgcctacagt cacgaagtgg ttcaaaggca 9300 tcaccctcca cctgactgca acgcgaccaa cattgctgac aacgagaaaa ttggggctgc 9360 gagcagacgc aacagcagaa tggattacag ggactacatc caggaatttt tctgtggggc 9420 gagaagggct ggagtacgta tggggcaacc atgaaccagt cagagtctgg gcccaggagt 9480 cggcaccagg cgacccacat ggatggccgc atgagatcat catccactat tatcatcggc 9540 atccagtcta cactgtcatt gtgctgtgtg gtgtcgctct tgctatcctg gtaggcactg 9600 catcgtcagc agcttgtatc gccaaagcaa gaagagactg cctgacgcca tacgcgcttg 9660 caccgaacgc aacggtaccc acagcattag cagttttgtg ctgtattcgg ccaaccaacg 9720 ctgaaacatt tggagaaact ttgaaccatc tgtggtttaa caaccaaccg tttctctggg 9780 cacagttgtg catccctctg gcagcgcttg ttattctgtt ccgctgcttt tcatgctgca 9840 tgcctttttt attggttgca ggcgtctgcc tggggaaggt agacgccttc gaacatgcga 9900 ccactgtgcc aaatgttccg gggatcccgt ataaggcgtt ggtcgaacgt gcaggttacg 9960 cgccacttaa tctggagatc actgtcgtct catcggaatt aacaccctca actaacaagg 10020 agtacgtgac ctgcagattc cacacagtca ttccttcacc acaagttaaa tgctgcgggt 10080 ccctcgagtg taaggcatcc tcaaaagcgg attacacatg ccgcgttttt ggcggtgtgt 10140 accctttcat gtggggaggc gcacagtgct tctgtgacag tgagaacaca caactgagtg 10200 aggcatacgt cgagttcgct ccagactgca ctattgatca tgcagtcgca ctaaaagttc 10260 acacagctgc tctgaaagtc ggcctgcgta tagtatacgg caataccacc gcgcacctgg 10320 atacgttcgt caatggcgtc acgccaggtt cctcacggga cctgaaggtc atagcagggc 10380 cgatatcagc cgctttttca ccctttgacc ataaggtcgt catcagaaag gggcttgttt 10440 acaactacga cttccctgaa tatggagcta tgaaaccagg agcgttcggc gatattcaag 10500 catcctcgct tgatgccaca gacatagtag cccgcactga catacggctg ctgaagcctt 10560 ctgtcaagaa catccacgtc ccctacaccc aagcagtatc agggtatgaa atgtggaaga 10620 acaactcagg acgacccctg caagaaacag caccatttgg atgtaaaatt gaagtggagc 10680 ctctgcgagc gtctaactgt gcttacgggc acatccctat ctcgattgac atccctgacg 10740 cagcttttgt gagatcatca gaatcaccaa caattttaga agttagctgc acagtagcag 10800 actgcattta ttctgcagac tttggtggtt cgctaacatt acagtacaaa gctgacaggg 10860 agggacattg tccagttcac tcccactcca caacagctgt tttgaaggaa gcgaccacac 10920 atgtgactgc cgtaggcagc ataacactac attttagcac atcgagccca caagcaaatt 10980 ttatagtttc gctatgcggc aagaagacca cctgcaatgc tgaatgtaaa ccaccggccg 11040 accacataat tggagaacca cataaagtcg accaagaatt ccaggcggca gtttccaaaa 11100 catcttggaa ttggctgctt gcactgtttg ggggagcatc atccctcatt gttgtaggac 11160 ttatagtgtt ggtctgcagc tctatgctta taaacacacg tagatgactg agcgcggaca 11220 ctgacatagc ggtaaaactc gatgtacttc cgaggaagcg tggtgcataa cgccacgcgc 11280 cgcttgacac taaaactcga tgtatttccg aggaagcaca gtgcataatg ctgtgcagtg 11340 tcacattaat cgtatatcac actacatatt aacaacacta tatcactttt atgagactca 11400 ctatgggtct ctaatataca ctacacatat tttacttaaa aacactatac acactttata 11460 aattctttta taatttttct tttgttttta ttttgttttt aaaatttc 11508 // ID GQ287645; SV 1; linear; genomic RNA; STD; VRL; 11508 BP. XX AC GQ287645; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate 71V1658, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11508 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11508 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; 1b4a0483a2421f3bbbfbd89f196aa32d. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4259830; 25463613. DR EuropePMC; PMC4726549; 26807734. DR EuropePMC; PMC5863033; 29577083. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11508 FT /organism="Western equine encephalitis virus" FT /host="horse" FT /isolate="71V1658" FT /mol_type="genomic RNA" FT /country="USA:Oregon" FT /isolation_source="brain" FT /collection_date="1971" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7452 FT /codon_start=1 FT /transl_except=(pos:5605..5607,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPG1" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPG1" FT /protein_id="ACT75285.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITDKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRLGK FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLKLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSXETPRGHJRVTSYPGEEKIGSYAILSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDIDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLKTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRRMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKTLTAKYPGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKVNVCWAKALEPVLATANIVLTRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYRNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLGVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIIEAIHRKESVEILDDDKPVDIDLVRVHPNSSLAGRPGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFLLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAEIILETPPPPATTTVICEPTVPERIPSPVISRAPSAESLLSLGGVS FT FSSSATRSSTAWSDYDRRFVVTADVHQANTSTWSIPSAPGLDVQLPSDVTDSHWSIPSA FT SGFEVRTPSVQDLTAECAKPRGLAEIMQDFNTAPFQFLSDYRPVPAPRRRPIPSPRSTA FT SAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQK FT SVRQCKLQEPILDRAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMKA FT ITAERLISGLGTYLSSEVNPVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQENY FT PTVASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQ FT NTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTTE FT NVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQ FT VIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAEHFHHGDPVLE FT TDIASFDKSEDDAIAISALMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMM FT KSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATWL FT NMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLPVDDTQDCDR FT RRALHDEAMRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGSPIT FT LYG" FT CDS 7497..11207 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPG2" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPG2" FT /protein_id="ACT75286.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIVNLTFKQRSPNPPPGPPPKKKKSAPKPKPTQPKKKKQQAKRTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASMYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTIRDTPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLTPERTLDVLEENVDNPNYDTLLENVLKCPSRRPKRSITDDFTLTSPYLGFCPYCRH FT STPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSM FT EKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGASENSCTVEKKIRRKFVGREE FT YLFPPVHGKLVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTRTKMNGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVTKWFKGITLHLTAMRPTLLTTRKLGLRADATAEWITGSTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACIAKARRDCLTPYALAPNATVPTALAVLCCIRPTNAETFGETLNHLW FT FNNQPFLWAQLCIPLAALVILFRCFSCCMPFLLVAGVCLGKVDAFEHATTXPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCKFHTVIPSPQVKCCGSLECKASSKA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGLVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAVGSITLHFSTSSPQANFIVSL FT CGKKSTCNAECKPPADHIIGEPHKVDQEFQAAVSKTSWNWLLALFGGASSLIVVGLIVL FT VCSSMLINTRR" XX SQ Sequence 11508 BP; 3255 A; 2846 C; 2814 G; 2585 T; 8 other; atagggcacg gtatagagga acctacccta caaactaatc gatccaatat ggaaagaatt 60 cacgttgact tagatgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggacatt 240 ggaagtgcgc ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccctatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gacgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggctttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcctaccc tacttacaac acgaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggcttgg aaaactctca 720 atccttagga agaagaggct ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aagatagatc actgttacgt agctggcatc ttccaaacgt gttccacttg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgtga agggtacgtc 900 atcaaaaaga taacgatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgctgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgacgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaaa 1260 gaactagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaagc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcatc tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccaccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgkggaga caccacgagg acacmtcagg 1680 gtgacaagtt acccaggcga agagaagatt gggtcttacg ctatactttc accccaggcg 1740 gtattgaata gtgaaaaact ggcgtgtatc cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggcagg gagatacaaa gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cggcggtccc tgttcaagac ttccaggcat tgagtgagag cgctacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tacctgcacc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtcttcg atattgacgc acgaaagtgt gttaagcgag aagacgcagg tcccttgtgc 2100 ctaaccggtg atctggtaga tccaccattt cacgagtttg cgtacgagag tctcaagaca 2160 cgaccagcag cacctcacaa agtcccaacc atcggagtct atggagtgcc aggttcaggt 2220 aaatctggaa tcatcaaaag cgctgtgact aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaatcat cagggatgta aggaggatga gacgtatgga tgttgctgct 2340 aggactgtcg attcagtgct tctaaatggg gttaagcacc ccgttaacac tctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaagtgtacc ataaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc catcgtctcc acgctcttct acgacaagcg aatgaagacg 2640 gttaacccat gtgctgataa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga ttctaacctg tttcagagga tgggtgaaac agctacagat tgactacaaa 2760 aatcacgaaa tcatgactgc ggctgcatcg caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga tccctggata 2940 aagacactta cagctaaata tcccggggat ttcacggctt cattggacga ctggcagcgc 3000 gaacacgacg ccattatggc acgcgttctt gataagccgc agacagctga tgtgttccag 3060 aataaggtga acgtctgctg ggcgaaggct ttagagccag tcttggccac ggccaacatt 3120 gtgctgacga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg cactgaactt cttttgcacc aggttctttg gagtagacct ggacagtggg 3240 ttattttccg ctcctaccgt cgcacttact tacagggatc agcactggga taactcgcca 3300 gggaagaaca tgtatgggct taatagagag gtagcaaagg agttgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgcc ggttgcccca ctcgttgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagcggat tcctatctaa gatgaagggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattccag ggaagaaagt agagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctcgatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatctt tgtcaatgtt aggaccccgt acaggaacca tcactaccaa 3720 cagtgcgagg atcacgctat ccaccacagc atgctaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggctataggg tatgggcttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtggcacg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcggtgt agtgcttgac aacatctatc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtta atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctagactt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtccat cgtcaacgct 4320 gagcggatta caaaaatatc agtaccgcta ctgtcaaccg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgccgat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taatcgaggc cattcaccgc 4500 aaagaaagcg tcgaaattct ggatgatgac aagccagtag acattgactt ggtcagggtc 4560 cacccaaaca gctctttggc aggcagacca ggttactccg tcaatgaggg caagttgtat 4620 tcatacctgg aaggtacacg attccatcag accgccaagg acattgccga aatccatgca 4680 atgtggccca acaaatctga ggctaatgag cagatttgct tgtacatcct gggggagagt 4740 atgtccagca tccgctccaa atgcccagta gaggagtcag aggcgtctgc tccacctcac 4800 acacttccat gcctgtgtaa ttacgctatg acggctgagc gcgtatacag gttgcgctct 4860 gcgaagaaag aacagttcgc cgtatgctca tcattcctgt tgccgaagta caggatcaca 4920 ggcgtgcaga agctacagtg cagcaaacca gtcctgtttt caggcgtcgt accaccggct 4980 gtacacccca ggaagtacgc ggaaataatt ctagaaacgc caccaccgcc agcaacgaca 5040 accgtaatat gtgaaccaac tgtgccagaa cgtataccca gtccggtgat ttctagagca 5100 ccaagtgcgg aatcactgct atcgcttggc ggcgtctcgt tctctagctc tgccacacgc 5160 tcgtcaaccg cctggagcga ctatgacagg cggtttgtgg ttacagctga tgtgcatcaa 5220 gcgaacacgt ctacgtggag catccctagt gctcctggct tggacgtcca gctgccttct 5280 gacgtcactg attcccactg gagtattcca agtgcatcag gctttgaagt gagaacacca 5340 tctgtacagg acctaactgc ggagtgtgcg aagcctcgtg gactggccga aataatgcaa 5400 gacttcaata ctgctccttt ccagtttctt tcggactaca gaccagtacc ggcaccacgg 5460 agacgcccca tcccatcacc tagatcgacg gcttccgcac ctccagttcc aaagccacgc 5520 aggactaagt accaacaacc accaggagtc gctagagcga tctcagaagc ggagttggac 5580 gagtacatcc gtcaacactc caactgacgg tatgaagcgg gagcgtatat tttctcatcg 5640 gaaacaggcc aaggtcacct tcaacagaaa tcagtacgtc aatgtaaact acaagaacct 5700 atattggatc gggccgtcca tgagaagtat tacgccccgc gcctcgatct cgaaagagag 5760 aaaatgttac agaagaaact gcaattatgc gcctctgaag gaaatagaag caggtatcaa 5820 tcacgaaaag tagaaaatat gaaagcaatt acagcggagc gactcatttc tggattgggc 5880 acatatctat catcagaagt gaatcctgtc gagtgttaca gagtcaatta tcctgtacca 5940 atctactcgt caacggtaat taacaggttt acatctgcag aggtcgcggt taaaacgtgc 6000 aacttagtta tccaagagaa ttaccctaca gtagccagtt attgtataac agatgaatac 6060 gatgcgtatc ttgacatggt ggacggcgca tcgtgctgtc tagatacmgc cactttttgt 6120 ccggctaaac tgagaagcta cccaaagaag catagctatt tgcagccaga gataagatca 6180 gccgtcccat cgcctataca gaatacatta caaaatgtat tggctgcagc tactaaaagg 6240 aattgcaacg ttacccaaat gcgagaatta cctgtcttag attcggcggc atttaatgtt 6300 gattgtttca agaaatacgc atgcaatgat gagtactggg atacctttcg cgataaccct 6360 attcggctaa ctacagagaa cgttacgcaa tatgtgacaa agctgaaagg gccgaaagca 6420 gcagcattgt ttgcgaaaac tcataatcta aaaccgttgc aggagatacc aatggatcaa 6480 ttcgtcatgg atctaaaaag agatgtcaaa gttactcccg gcacgaaaca tacagaggag 6540 cggcctaagg tgcaggttat tcaggctgca gatccccttg ctaccgctta cctttgcggg 6600 atccatcggg aattagtccg tagactgaat gcggtgcttc tgccaaatat ccatactctc 6660 ttcgacatgt cagcggaaga ttttgatgcg attattgctg aacatttcca ccacggcgac 6720 ccagtattgg aaacggacat cgcgtcgttt gataaaagcg aagacgacgc tatcgccatt 6780 tcggcgttga tgatccttga ggacttaggt gtcgaccaac cgctcttaga tttgatagag 6840 gcggcgttcg gcaatatcac atctgtgcac ctacctacag gaacgaggtt taaatttggt 6900 gccatgatga aatccggtat gttcttaacg ctgtttgtca acacactagt caatatcatg 6960 attgctagca gagtactacg tgaacggtta accacgtcag cgtgcgcggc ctttatcggc 7020 gacgataaca tagtgcatgg tgtcgtctcc gacaccttga tggcggagag atgcgccact 7080 tggctgaaca tggaagtaaa aattattgat gcagttattg gtatcaaagc accctacttc 7140 tgtgggggat ttatcctggt ggaccagata acaggcacag cctgcagggt cgcagaccct 7200 ctaaaaaggc tttttaagct tggaaaacca ttgccagtcg atgataccca agactgcgac 7260 cgccgccggg cactgcatga tgaagcaatg cgatggaaca gaattggaat tacggacgag 7320 ttagtgaagg ccgtagaatc cagatacgag atcatactgg caggcctgat catcacgtct 7380 ctgtccacgt tagccgaaag cgttaagaac ttcaagagca taagagggag cccaatcacc 7440 ctctacggct gacctaaata ggtgacgtag tagacacgca cctacccacc gccagaatgt 7500 ttccataccc tcagctgaac tttccaccag tttaccctac aaatccgatg gcttaccgag 7560 atccaaaccc tcctaggcgc cgctggaggc cgtttcggcc cccgctggct gctcaaatcg 7620 aagatcttag gaggtcgata gtcaacttga ctttcaaaca acgatcacct aatccgccgc 7680 caggtccacc gccaaagaag aagaagagtg ctcctaagcc aaaacctact cagcctaaaa 7740 agaagaagca gcaagccaag aggacgaaac gcaagcctaa accagggaaa cgacaacgta 7800 tgtgtatgaa gttggagtcg gacaagacat ttccgatcat gctgaacggc caagtgaatg 7860 gatatgcctg cgttgtcgga ggaaggctga tgaaaccact ccacgttgaa ggaaaaattg 7920 ataatgagca attagcggcc gtgaaattga agaaggctag catgtacgac ttggagtacg 7980 gcgacgttcc ccagaacatg aaatcagaca cgctgcagta caccagcgac aaaccaccgg 8040 gcttctacaa ctggcaccac ggcgcagtcc agtatgagaa tgggagattt accgtaccga 8100 gaggagtggg cgggaaaggc gacagcggaa gaccgatcct ggacaacaga ggcagagttg 8160 tggctattgt tctaggaggt gcaaatgagg gcacgcgtac ggcgctttca gtggtcactt 8220 ggaaccagaa aggggtgacc attagggata cccccgaagg ttctgaaccg tggtcactag 8280 ttacagcgct atgcgtgctt tcgaatgtca cgttcccatg cgacaaacca cccgtgtgct 8340 attcactgac gccagaacga acactcgacg tgctcgaaga gaacgtcgac aatccaaatt 8400 acgacacgct gctggagaac gtcttgaaat gtccatcacg ccggcccaaa cgaagcatta 8460 ccgatgactt cacactgacc agtccctacc tggggttctg cccgtattgc agacactcaa 8520 cgccgtgttt cagcccaata aaaattgaga acgtgtggga cgaatctgat gatggatcga 8580 ttagaatcca ggtctcggca caattcggct acaatcaggc aggcactgcg gatgtcacca 8640 aattccgtta catgtctttc gaccacgacc atgacatcaa ggaagacagt atggagaaaa 8700 tagctatcag cacatctgga ccctgccgtc gtcttggcca caaagggtac ttcctgttag 8760 ctcaatgtcc tccaggtgac agtgtaaccg tcagtatcac gagcggagca tctgagaatt 8820 catgcaccgt ggagaaaaag atcaggagga agtttgtcgg tagagaggag tacttgttcc 8880 cacccgtcca tggaaagctg gtaaagtgcc acgtttacga tcacttgaag gagacgtctg 8940 ccgggtacat aaccatgcac aggccaggcc cacacgcgta taagtcctat ctggaggaag 9000 cgtcaggcga agtgtacatt aaaccacctt ctggcaagaa cgtcacctac gaatgtaagt 9060 gtggcgacta cagcacaggt atcgtgagca cgcgaacgaa gatgaacggc tgcactaaag 9120 caaaacagtg cattgcctac aagagcgacc aaacgaaatg ggtcttcaac tcgccggatc 9180 ttattaggca cacagaccac tcagtgcaag gtaaattgca cattccattc cgcttgacac 9240 cgacagtctg cccggttccg ttagctcaca cgcctacagt cacgaagtgg ttcaaaggca 9300 tcaccctcca cctgactgca atgcgaccaa cattgctgac aacgagaaaa ttggggctgc 9360 gagcagacgc aacagcagaa tggattacag ggtctacatc caggaatttt tctgtggggc 9420 gagaagggct ggagtacgta tggggtaacc atgaaccagt cagagtctgg gcccaggagt 9480 cggcaccagg cgacccacat ggatggccgc atgagatcat catccactat tatcatcggc 9540 atccagtcta cactgtcatt gtgctgtgtg gtgtcgctct tgctatcctg gtaggcactg 9600 catcatcagc agcttgcatc gccaaagcaa gaagagactg cctgacgcca tacgcgcttg 9660 caccgaacgc aacggtaccc acagcattag cggttttgtg ctgcattcgg ccaaccaacg 9720 ctgaaacatt tggagaaact ttgaaccatc tgtggtttaa caaccaaccg tttctctggg 9780 cacagttgtg cattcctctg gcagcgcttg ttattctgtt ccgctgcttt tcatgctgca 9840 tgcctttttt attggttgca ggcgtctgcc tggggaaggt agacgccttc gaacatgcga 9900 ccackktgcc aaatgttccg gggatcccgt ataaggcgtt ggtcgaacgc gcaggttacg 9960 cgccacttaa cctggagatc acggtcgtct catcggaatt aacaccttca actaacaagg 10020 agtacgtgac ctgcaaattc cacacagtca ttccttcacc acaagttaaa tgctgcgggt 10080 ccctcgagtg caaggcatcc tcaaaggcgg attacacatg ccgcgttttt ggcggtgtgt 10140 accctttcat gtggggaggc gcacaatgct tctgtgacag tgagaacaca caactgagtg 10200 aggcgtacgt cgagttcgct ccagactgca ctatagatca cgcagtcgca ctaaaagttc 10260 acacagctgc tctgaaagtc ggcctgcgta tagtatacgg caacaccacc gcgcacctgg 10320 atacgtttgt caatggcgtc acgccaggtt cctcacggga cctgaaggtc atagcagggc 10380 cgatatcagc cgctttttca ccctttgacc ataaggtcgt catcagaaag gggcttgttt 10440 acaactacga cttccctgag tatggagcta tgaaaccagg agcgttcggc gatattcaag 10500 catcctcgct tgatgctaca gacatagtag cccgcactga catacggctg ctgaagcctt 10560 ctgtcaagaa catccacgtc ccctacaccc aagcagtatc agggtatgaa atgtggaaga 10620 acaactcagg acgacccctg caagaaacag caccatttgg atgtaaaatt gaagtggagc 10680 ctctgcgagc gtctaactgt gcttacgggc acatccctat ctcgattgac atccctgatg 10740 cagcttttgt gagatcatca gaatcaccaa caattttaga agttagctgc acagtagcag 10800 actgcattta ttctgcagac tttggtggtt ctctaacatt acagtacaaa gctgacaggg 10860 agggacattg tccagttcac tcccactcca cgacagctgt tttgaaggaa gcgaccacac 10920 atgtgactgc cgtaggcagc ataacactac attttagcac atcgagccca caagcaaatt 10980 ttatagtttc gctatgcggc aagaagtcca cctgcaatgc tgaatgtaaa ccaccggccg 11040 accacataat tggagaacca cataaagtcg accaagaatt ccaggcggca gtttccaaaa 11100 catcttggaa ctggctgctt gcactgtttg ggggagcatc atccctcatt gttgtaggac 11160 ttatagtgtt ggtctgcagc tctatgctta taaacacacg tagatgactg agcgcggaca 11220 ctgacatagc ggtaaaactc gatgtacttc cgaggaagcg tggtgcataa tgccacgcgc 11280 cgcttgacac taaaactcga tgtatttccg aggaagcaca gtgcataatg ctgtgcagtg 11340 tcmcattaat cgtatatcac actacatatt aacaacacta tatcactttt atgagactca 11400 ctatgggtct ctaatataca ctacacatat tttacttaaa aacmctatac mcactttata 11460 aattctttta taatttttct tttgttttta ttttgttttt aaaatttc 11508 // ID GQ287646; SV 1; linear; genomic RNA; STD; VRL; 11562 BP. XX AC GQ287646; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate AG80-646, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11562 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11562 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; 1441cc5c7234e0b7e0e9030e970b4a82. DR EuropePMC; PMC3302268; 22190718. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4259830; 25463613. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11562 FT /organism="Western equine encephalitis virus" FT /host="Culex sp." FT /isolate="AG80-646" FT /mol_type="genomic RNA" FT /country="Argentina:Chaco Province" FT /collection_date="1980" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7443 FT /codon_start=1 FT /transl_except=(pos:5596..5598,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPG3" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPG3" FT /protein_id="ACT75287.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDXDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHTHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT VTDKNIASKAADLLEVMSTPDAETPSLCMHTDATCSYFGSVAVYQDVYAVHAPTSIYYQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVSEARNIGLGDSDLQESRLGK FT ISILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVNVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVVPRIASRSL FT DMGLRRRLKLLLEPAVKPAPAITLADVEHLRELQQEAEEVTTAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSAETPRGHIRVTSYPGEEKIGSYAILSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVLDFQALSESATIVFNEREFVNRY FT LHHIATNGGALNTDEEYYKTVKTLDTDAEYVFDIDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLKTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRRMDVVARTVDSVLLNGIKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKTLTAKYPGDFTASLDDWQREHDAI FT MARVLDEPQTADVFQNKVNVCWAKALEPVLATANIVLTRQQWETLLPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSSPIVALTYRDQHWDNSPGKNMYGLNREVVKELSQRYPCIT FT KAVDTGRVADIRNNTIKDYSPGINVVPLNRRLPHSLIVDHKGRGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKXVEFMGPLPTSTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLSVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSDD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDKQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMNIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIAEAIHRKESVEVLDDDKPVDIDLVRVHPNSSLAGRSGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIYAMWPNKTEANEQICSYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRAAKKEQFAVCSSFPLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAETVLEIPPSPATTTVVEPTVPERIPSPVTSRAPSVGSLLSLGGVSS FT SSAESSSAWCDYDRRVVITADVHQANTSTWSISSAPGLDVQLSSDDTESHWSVPSASGF FT EVKIPSVRDITIDCARPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRSTASAP FT PVPKPRRTKYQQPPGVARAISEAELDEYIHQHSNXRYEAGAYIFSSETGQSHLQQKSVR FT QCKLQDPILERAIHEKYYAPRLDLEREKILQKKLQLCASEGNRSRYQSRKVENMKAITV FT ERLISGLGTYLSSEVNPVECYRVNYPIPIYSSSISNKFTSAEVAVKSCNLVIQENYPTV FT ASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQNTL FT QNVLAAATKRNCNVTQMRELPVLDSAAFNVECFKKYACNNEYWDTFRDNPIRLTTENVT FT QYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQVIQ FT AADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAEHFHHGDPVLETDI FT ASFDKSEDDAIAISALMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMMKSG FT MFLTLFVNTLVNIMIASRVLRERLTNSACAAFIGDDNIVHGVVSDTLMAERCATWLNME FT VKIIDAVIGIKAPYFCGGFILVDQVTGTTCRVADPLKRLFKLGKPLPVDDTQDCDRRRA FT LYDEVLRWNRIGITDELVKAVESRYEIILAGIIITSLSTLAESVDNFKSIRGNPIALYG FT " FT CDS 7486..11187 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPG4" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPG4" FT /protein_id="ACT75288.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRSPNAPPGPPPKKKKSTPKPKPTQPKKKKQQAKKAKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVRLKKASMYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTIRDTPDGSESWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDILEENVDNLNYDTLLENILRCPSRRQKRSITDDFTLTSPYLGFCPYCRH FT SVPCSSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSLDQDHNIKEDSM FT DKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITGVASCTVEKKIRRKFTGREEYLF FT PPVHGKLVKCHVYDHLKETSAGYITMHRPGPHAYTSYLEESSGEVYIKPPSGKNVTYEC FT KCGDYSTGTVSTRTKMNGCTKAKQCIAYKSDRTKWVFNSPDLIRHTDHSVQGKLHIPFR FT LTPSVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTSRNF FT SVGREGLEYVWGNHDPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVTLAI FT LIGLASSAACIAKARRDCMTPYALAPNATVPTALAVLCCIRPTNAETFGETLTHLWINN FT QPLLWAQLCIPLAALIILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPYKAL FT VERAGYAPLNLEITVISSELTPSTNKEYVTCSFHTVIPSPQVKCCGTLECKASSKADYT FT CRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTVDHAVALKVHTAALKVSLRIV FT YGNTTARLDTFVNGVTPGSTRDLKVIAGPISAAFSPFDHKVVIRKGLVYNYDFPEYGAM FT RPGVFGDIQASSLDAKDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPLQET FT APFGCKIEVEPLRASDCAYGHIPISIDIPDAAFVRSSESPTILEVSCSVADCIYSADFG FT GSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAIGSITLHFSTSSPQANFIISLCGK FT KTTCNAECKPPEDHIIGEPHKVDQEFQAAVSKTSWNWLLALFGGASSLIVVGLIVLVCS FT SMLINTRK" FT 3'UTR 11188..11335 XX SQ Sequence 11562 BP; 3301 A; 2782 C; 2801 G; 2670 T; 8 other; atagggcatg gtatagaggc acctacccta taagccaatc gatccaacat ggaaagaatt 60 cacgttgacc tagacgctga cagtccatat gtcaagtcgt tacagcggag ctttcctcag 120 tttgagatcg aagcaaggca ggtcactgac arcgaccatg ccaatgccag agcattttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggatatt 240 ggaagtgcgc ccgtcaggca tacacattcc aatcaccgct atcattgtat ctgccccatg 300 ataagcgctg aagacccgga cagactgcaa cggtacgcag aaagactaaa gaaaagcgac 360 gttaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacaccg 420 gacgccgaga ctccatccct atgtatgcac acagacgcca cgtgtagtta ttttggaagt 480 gtagcagtat accaagatgt gtacgcagtt catgcaccaa catcgatcta ctaccaggcg 540 cttaaaggag tcaggacaat ttattggata ggttttgaca cgactccttt tatgtacaaa 600 aacatggcag gctcctaccc tacttataac acaaactggg ctgacgagag ggtgtcagaa 660 gcacgcaata tcggcctcgg tgactcagat cttcaagaaa gcaggctagg aaaaatctct 720 atccttagaa agaagcggct ccaaccaacc aataagatca tattttcggt cggttcaaca 780 atctacacgg aggacagatc attgttacgt agctggcacc ttccaaatgt attccaccta 840 aaaggaaagt ctaactttac gggcagatgt ggaacaattg tcagctgcga agggtaygtt 900 attaaaaaaa taacaatcag cccaggacta tacggtaagg ttgaaaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gttacagata cattacgagg cgaaagggtc 1020 tcttttgccg tatgtacgta tgtaccagcc acgctttgcg atcagatgac agggattctg 1080 gcaactgacg ttaacgtgga tgacgcacag aaactgttgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca gagaaatact aacacaatgc agaattattt attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgatctgga tgacgagaaa 1260 gagttagggg tgcgtgagcg taccctcact atgggctgct gctgggcttt taagacccaa 1320 aaaattacat caatctacaa gaagcctggt acacaaacaa ttaagaaagt gcccgccgtc 1380 tttgactcat tcgtggtgcc gcgcattgcc agtcgtagcc tcgatatggg cctccgtcgt 1440 aggctcaagc tgttgctcga accagctgtc aaacccgcac ctgctatcac actggctgat 1500 gtggagcacc ttcgtgaatt acaacaagaa gcagaggagg tgaccacagc ggaagagatt 1560 agagaagcac ttcctccgtt gctccctgaa atagaaaaag agacagtgga agctgaagtc 1620 gacctcatta tgcaagaggc aggagcaggc agcgcggaga caccacgagg acacatcagg 1680 gtaacaagtt acccgggtga ggaaaagatc gggtcgtatg ctatactttc accccaagcg 1740 gttttgaata gtgaaaaact ggcgtgtatc cacccgttgg cggaacaagt actggtaatg 1800 acccataaag gtagagcagg acgatataaa gttgagccat accacggtaa agtcatcgta 1860 cctgaaggga cggcagtccc cgtccttgac tttcaagcat tgagtgagag tgcaacaatc 1920 gtttttaacg aaagggagtt tgtaaacaga tatctgcacc acattgcaac caacggaggt 1980 gcgctaaaca ccgacgaaga gtattacaag actgtaaaga ctctggacac agacgcagaa 2040 tacgtcttcg acattgacgc acgaaagtgt gttaagcgag aagacgcagg cccattgtgt 2100 ctaactggtg acttagttga tccaccattc cacgaatttg cgtacgaaag cctcaaaacg 2160 cgaccagcgg caccccataa agtcccgacc atcggtgtct acggggtgcc gggttcaggc 2220 aaatctggaa ttattaaaag cgctgtgact aagaaggatt tggttgtgag tgcaaagaag 2280 gaaaactgcg cggaaatcat cagagatgta aggaggatga gacgcatgga tgttgttgct 2340 aggactgttg actcagtact tctaaacggg attaagcatc ccgttaacac gttgtacatt 2400 gacgaggcat tcgcatgcca tgcagggacg ctgttggcat tgattgccat cgtcaaaccc 2460 aagaaagtgg tactgtgcgg ggaccctaaa caatgcgggt tcttcaacat gatgtgcctg 2520 aaagtacact ttaaccacga tatatgtact gaagtgtacc ataaaagcat ctctaggagg 2580 tgcacacaaa ccgtaaccgc cattgtctcc acgcttttct acgataagcg aatgaagacg 2640 gtcaacccgt gtgctgataa aattattatt gacactacgg ggaccacaaa accgcacaaa 2700 gacgacctga ttctaacttg tttcagagga tgggtgaaac aattacagat cgactataag 2760 aaccacgaaa ttatgaccgc ggccgcatca caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga aaatccgctc tattcgcaga cctctgagca tgtgaacgtg 2880 ttacttacac gcacagaaaa acgtatcgtc tggaagacgc tagctggtga cccttggata 2940 aagacactta cagctaagta ccccggggat ttcacagctt cattggacga ctggcagcgc 3000 gagcacgacg ctattatggc acgcgttctc gatgagccac agacagctga tgtgttccag 3060 aacaaagtga acgtctgctg ggcgaaggca ttagagccgg ttttggccac ggctaatatc 3120 gtgctaacgc gacagcaatg ggagacacta ctcccattta agcacgaccg agcgtactca 3180 cctgaaatgg cacttaactt cttttgcacc aggttcttcg gagtggacct ggacagcggg 3240 ttgttctcat ctccaatcgt tgcccttaca tatagggatc agcactggga taattcacca 3300 gggaagaata tgtatgggct taacagggag gtggtgaagg agttgtcgca gcgttaccct 3360 tgtatcacaa aggcggttga tacaggtagg gtagctgaca tacggaataa cactattaaa 3420 gactactcac caggtatcaa tgtggttccg ctaaatcgcc ggctacccca ctcattgatt 3480 gtcgatcata aaggacgagg tacaaccgac cacagcgggt tcttatctaa gatgaaaggt 3540 aaatccgtgt tggtgattgg cgaccctatc agcattccag ggaagaamgt agagtttatg 3600 ggtccattgc ctaccagcac cattaggtgt gatcttgatt tgggaatacc tagccacgtc 3660 ggtaaatatg acattatatt tgtcaatgtt agaacccctt acaagaatca ccattaccaa 3720 cagtgcgagg atcatgccat tcaccacagt atgctaacgt gtaaggccgt tcaccatttg 3780 aacactggcg gaacttgtgt ggccataggg tacggccttg ctgatcgagc cactgagaat 3840 ataatcacag cagtggcacg ctcgtttcgg ttcacccgtg tctgtcagcc caagaacact 3900 gccgaaaaca ctgaggttct cttcgtgttc ttcggcaagg acaatggtaa ccayacacac 3960 gatcaagata ggctcagtgt cgtgcttgac aacatttacc aagggtcaac cagatacgag 4020 gcagggagag caccggcgta cagagtgatt aggggtgaca tcagcaagag cgacgaccag 4080 gctatcgtta acgccgccaa tagcaaaggt caaccaggtt caggtgtgtg cggtgcactt 4140 taccgaaagt ggccggctgc atttgataaa caaccaatag ctgtcgggac tgctagactt 4200 gtgaagcacg aaccactcat tatacacgct gttggaccaa atttttcaaa gatgccagaa 4260 ccagaaggcg accttaagct ggcagctgcc tacatgaaca tagcgtcgat cgttaacgcc 4320 gagcggatta ctaagatatc agtaccacta ctatcaactg gcatctattc cggtggcaaa 4380 gacagagtga tgcaatcatt gcatcacctg ttcacggcct ttgacactac ggacgctgat 4440 gtcaccatat actgcttgga taaacaatgg gagaccagaa tagctgaggc catccatcgc 4500 aaagaaagtg tagaggtwct kgatgacgac aagcctgtgg acattgattt ggttagggtc 4560 cacccaaaca gctctttggc aggcagatcc ggttactccg tcaatgaagg caagctgtat 4620 tcatacctag aaggtacacg atttcatcaa accgccaagg atatagcaga aatctatgca 4680 atgtggccca acaaaactga agctaacgag cagatttgct cgtacattct aggagagagt 4740 atgtccagca tccggtctaa atgccccgtt gaggagtcag aagcatcagc tccaccccac 4800 acgcttccat gcctgtgcaa ctacgcgatg acggccgaac gtgtatatag gttgcgcgcg 4860 gcgaagaaag aacagttcgc agtatgttca tcattcccgt tgccgaagta caggatcact 4920 ggggtacaga aactacaatg cagcaaacca gtcctgttct caggtgtcgt gccgccagct 4980 gtacacccca ggaagtatgc tgaaacagtt ctagaaatac caccatcacc ggcaacgaca 5040 acagttgttg agccgaccgt gccagaacgt attcctagtc cggtgacttc tagagcacca 5100 agtgtgggat cactgttatc ccttggtggc gtctcgtcca gttctgccga gtcgtcatca 5160 gcctggtgcg actacgacag gcgggtcgtg attacagctg acgtgcacca agcgaacacg 5220 tctacgtgga gcatctccag cgccccaggc ttagacgtcc aactgtcgtc ggacgatacc 5280 gaatcacact ggagcgtacc gagtgcatca ggttttgaag taaaaattcc gtccgtacgg 5340 gacataacca tcgactgtgc aaggccccga ggattggccg aaataatgca agacttcaat 5400 acggctccat tccagttcct ttcggaccac agacctgtac ctgcaccacg gagacgcccc 5460 attccatcac ccagatcaac tgcctcagca ccaccagttc ccaaaccgcg cagaactaag 5520 tatcagcagc caccgggagt cgccagagca atctcggaag cggagctaga cgagtacatc 5580 caccaacact ccaattgacg gtatgaagcg ggagcgtata tcttctcatc ggaaacaggc 5640 cagagtcacc ttcagcagaa atcagtacgt caatgtaaac ttcaggatcc tatattggaa 5700 cgggccatcc atgagaagta ctacgccccg cgcctcgatc tcgaaaggga gaagattcta 5760 cagaagaaat tgcagctatg cgcctctgaa ggaaacagaa gcaggtacca atcacgaaaa 5820 gtagaaaata tgaaggcaat taccgtggaa cggctcattt ctggactggg tacttaccta 5880 tcgtcagaag tgaatcccgt cgagtgttac agggttaatt atcctatacc aatttactcg 5940 tcatcgataa gtaacaagtt tacatctgca gaggttgcgg tcaaatcgtg caatcttgtc 6000 atccaagaga attatccgac ggtagccagt tattgcataa cagatgaata cgatgcatac 6060 ttagatatgg tggacggcgc atcgtgctgt ctagatacgg ccaccttctg cccagctaaa 6120 ctgagaagtt acccgaagaa gcacagttac ctgcagccag agataaggtc ggcggtgcca 6180 tcacccatac agaataccct acaaaatgta ctggcagcag ctaccaagag gaactgcaac 6240 gttactcaaa tgcgagaact acctgtttta gattcggcgg cattcaatgt tgagtgtttt 6300 aaaaagtacg cgtgcaataa cgagtattgg gatacctttc gtgataaccc tattcggtta 6360 actacagaga acgttacgca atacgtaaca aaactgaaag gaccgaaagc agcagcattg 6420 ttcgcgaaga ctcataattt aaaaccgttg caggagatac caatggatca atttgtcatg 6480 gatctgaaaa gagatgttaa agtcactccc ggtactaaac atacagagga gcggcctaag 6540 gtgcaggtta ttcaggctgc ggatccgctt gctactgcat atctttgcgg gatccaccgt 6600 gaattggttc gcagactgaa tgctgtgctt ctgccgaata tccatactct cttcgacatg 6660 tcagcggagg attttgacgc gattattgct gaacatttcc accacggcga cccagtattg 6720 gaaacggaca tcgcgtcgtt cgacaagagc gaagacgatg ccattgccat atctgcgctg 6780 atgattcttg aagacctggg cgttgatcaa ccacttttag atttgatcga ggcggcgttc 6840 ggcaacatta catctgtaca cctacctaca ggaacaaggt ttaaattcgg tgctatgatg 6900 aaatcaggca tgtttttaac gctgtttgtc aatacattag tcaacatcat gattgctagt 6960 agagtactac gtgaacggct gactaactca gcgtgtgcgg cctttatcgg tgacgacaac 7020 atagtacatg gcgtcgtctc cgacaccttg atggcggaaa gatgtgctac ctggctgaat 7080 atggaagtaa aaatcattga tgcagtcata ggtatcaagg ctccctactt ttgtggggga 7140 ttcatactag tggatcaagt aactggcaca acctgtaggg tcgcagaccc tctgaaaagg 7200 ctattcaagc ttggaaaacc attgccggtc gatgatacac aagactgtga ccgccgccgg 7260 gcattgtacg acgaggtatt acggtggaac agaattggta tcacggacga attggtgaag 7320 gccgtagaat ccaggtacga aattatactg gcaggcataa ttatcacatc tctttctacg 7380 ttggctgaga gtgttgataa ttttaagagc ataagaggga acccaattgc cctctacggc 7440 tgacctaaat aggtgacgta gtagacgcgc acctgccccg ccaaaatgtt tccgtaccct 7500 cagctgaact ttccaccagt gtaccctacg aatccgatgg cttatcgcga tccgaaccct 7560 cctaggcgtc gctggaggcc gtttcggccg ccactagccg ctcaaattga ggatcttaga 7620 agatcgatag ccaacttgac tttcaaacaa cgatctccta atgctccgcc aggcccacca 7680 ccaaaaaaga agaagagtac acccaaacct aaacctactc agcctaagaa gaagaagcaa 7740 caagccaaga aggcgaaacg caagcctaaa ccagggaaac gacagcgcat gtgtatgaag 7800 ttggagtcag acaagacatt tccaatcatg ctgaacggcc aagtgaacgg gtatgcttgc 7860 gttgtcgggg gaaggctgat gaaaccacta cacgttgaag gaaagattga taacgagcaa 7920 ctggcagccg tgagattgaa gaaggctagt atgtatgacc tggaatatgg tgacgttccc 7980 cagaatatga aatccgacac gttgcagtac accagcgata aaccaccagg attttacaac 8040 tggcaccatg gtgcagtcca gtatgagaac ggcagattca ccgtaccgcg aggagtaggc 8100 ggaaaaggtg acagtggaag accgatcctg gacaacagag gcagagttgt ggcaatcgta 8160 ctgggtggtg caaatgaggg cacgcgtacg gcactctcag tggtcacctg gaaccaaaaa 8220 ggggtgacca ttagggacac ccccgacggt tctgaatcgt ggtcactggt tacggcgctg 8280 tgcgtgctct cgaatgttac gtttccgtgt gacaaaccac ccgtgtgcta ctcgttggcg 8340 ccggaacgaa cgcttgatat tctcgaggag aacgtcgaca acctgaatta tgacacgctg 8400 ctggagaaca tcttgagatg tccatcgcga cggcagaaaa gaagcattac tgatgacttc 8460 acattgacca gcccctattt gggcttttgc ccatattgca gacactcagt accatgttcc 8520 agtccgataa agattgagaa cgtgtgggac gaatctgacg acggatcaat tagaatccag 8580 gtttctgcac agtttggtta caaccaagca ggcacggcag acgtcactaa attccggtat 8640 atgtctctag atcaagatca caacatcaag gaagacagta tggataaaat agctattagt 8700 acgtccggac cttgccgtcg tctcgggcat aaagggtatt tcctgttggc tcaatgtcct 8760 ccaggtgata gtgtaaccgt tagcatcaca ggcgtagcat cgtgcaccgt agagaaaaag 8820 atcaggagga agtttaccgg tagggaggag tatctgttcc cacctgtcca tggaaagttg 8880 gttaagtgtc atgtatacga tcacctgaaa gagacgtctg ctggatacat aaccatgcac 8940 agaccaggcc cgcacgcgta cacgtcctac ctggaggaat catcaggcga ggtgtacatt 9000 aaaccacctt caggcaagaa tgtcacatac gaatgtaagt gtggtgacta cagcacgggt 9060 accgtgagta cgcgcacgaa gatgaacggt tgcactaaag caaaacagtg cattgcttac 9120 aaaagtgatc gaacgaaatg ggttttcaat tcgccagatc ttattaggca cacggaccat 9180 tcagtgcaag gtaaactgca catcccgttc cgtttgacac catcagtttg cccggtccca 9240 ctggctcaca cacctacagt cacaaagtgg ttcaaaggca tcaccctcca cctgactgca 9300 acgagaccaa cgctactaac aacgagaaaa ttagggttgc gagcagacgc aacggcagaa 9360 tggattacag gaactacatc caggaatttt tctgtgggac gagaggggct ggagtacgtt 9420 tggggtaacc atgatccggt cagagtctgg gctcaggaat cagcaccagg cgacccgcat 9480 ggatggccgc acgagattat catccactac taccatcggc acccggtgta cactgttatc 9540 gtgctgtgtg gtgtcaccct ggctatcctc attggtcttg cgtcatcagc agcctgtatc 9600 gccaaagcaa gaagagactg catgacgccg tatgcgcttg caccgaatgc aactgtaccc 9660 acagcattag cagttttgtg ctgtattagg ccaaccaacg cagaaacatt tggagaaact 9720 ctaacccacc tgtggattaa caaccaaccg cttctttggg cacagttgtg catcccattg 9780 gcagcgctta ttatcttgtt tcgctgcttt tcatgctgta tgcctttttt attggttgca 9840 ggcgtctgcc tggggaaggt agacgccttc gaacatgcga ccactgtacc aaatgttcca 9900 gggatcccgt ataaggcgtt ggtcgaacga gcaggttatg ccccactcaa cctggagatt 9960 acagtcatct cgtcagaact aacaccctca accaacaagg aatacgtgac ctgcagtttt 10020 cacacagtga ttccatcacc acaagttaag tgctgcggga ccctcgagtg taaggcgtcc 10080 tcgaaggcag attacacatg ccgtgttttt ggaggcgtgt acccgtttat gtggggaggc 10140 gcacagtgct tttgtgacag cgagaacacg caactaagcg aagcatatgt cgagtttgct 10200 ccagattgca ctgtagatca cgcagtcgct ttaaaagttc acacagctgc tttgaaagtc 10260 agcctgcgca tagtatatgg caataccacc gcgcgcctgg atacgttcgt taatggcgtc 10320 acaccaggtt ccacgcgaga cctgaaggtc atcgcagggc cgatatcagc cgctttttcg 10380 ccctttgacc ataaagtcgt tattagaaaa gggcttgtct acaactatga ctttccagag 10440 tacggagcca tgagaccagg tgtgttcggc gatattcaag catcttcgct agacgccaag 10500 gacatagtag cccgcactga catacggctg ctgaagcctt ctgtcaagaa catccatgtt 10560 ccttacaccc aagcagtgtc agggtatgaa atgtggaaga acaattcagg acggccactg 10620 caagaaacgg caccgtttgg ctgtaaaatc gaagtggagc ctttgcgagc gtctgattgc 10680 gcttatgggc acatccctat ctcaatcgat attcctgacg cagctttcgt gagatcatca 10740 gagtcaccta caattctaga agtcagctgc tcggtagcag actgcatcta ttcggcagac 10800 tttggaggct cactgacact acagtacaaa gctgacaggg agggacactg tccagttcac 10860 tctcactcca ctacagctgt cttgaaggaa gcgaccacac acgtgactgc cataggcagc 10920 ataacgctac atttcagtac atcaagccca caagcaaatt ttataatttc gctgtgtggc 10980 aagaagacta cttgcaatgc tgaatgcaaa ccaccagagg accacataat tggtgaacca 11040 cacaaggttg accaggaatt ccaggcggca gtttctaaaa catcctggaa ctggctgctc 11100 gcgctgtttg ggggagcatc atccctcatt gttgtaggac ttatagtgtt ggtctgcagc 11160 tctatgctta taaacacacg taaatgaccg attattgaca ctgacacagc ggtaaaactc 11220 aatgtacttc tgaggaagcg tggtgcataa tgccacgcgc cgcttgacac caacactcga 11280 tgtattttcg aggtagcaca gcgcataata ctgtgcaata tcacattaat cgtatgttat 11340 attatgtaat aacaacaccg tatcatttaa acatatatta ttttaaaacm ctatatatat 11400 tttataccaa ttatatctag cgtatatcat attatgtaat aacaacacta tatcactttt 11460 atgaaactca ctatgggttt ccaatatata ttcttttaaa acmctacata tattttatat 11520 ttttgtatat tttcttttgt tttattttgt ttttaagatt tc 11562 // ID GQ287647; SV 1; linear; genomic RNA; STD; VRL; 11509 BP. XX AC GQ287647; XX DT 28-JUL-2009 (Rel. 101, Created) DT 28-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE Western equine encephalomyelitis virus isolate 85-452NM, complete genome. XX KW . XX OS Western equine encephalitis virus OC Viruses; Riboviria; Togaviridae; Alphavirus. XX RN [1] RP 1-11509 RX DOI; 10.1099/vir.0.008656-0. RX PUBMED; 19403754. RA Logue C.H., Bosio C.F., Welte T., Keene K.M., Ledermann J.P., Phillips A., RA Sheahan B.J., Pierro D.J., Marlenee N., Brault A.C., Bosio C.M., RA Singh A.J., Powers A.M., Olson K.E.; RT "Virulence variation among isolates of western equine encephalitis virus in RT an outbred mouse model"; RL J. Gen. Virol. 90(Pt 8):1848-1858(2009). XX RN [2] RP 1-11509 RA Keene K.K., Logue C.H., Powers A.M.; RT ; RL Submitted (18-JUN-2009) to the INSDC. RL BioMed, DSTL, Porton Down, Building 7, Rm. 201, Salisbury SP4 0JK, UK XX DR MD5; f8926e21691c2904914fdbc45b29333f. DR EuropePMC; PMC2887574; 19403754. DR EuropePMC; PMC3321764; 21529429. DR EuropePMC; PMC4136285; 24899192. DR EuropePMC; PMC4726549; 26807734. DR RFAM; RF00470; Toga_5_CRE. DR RFAM; RF01836; weev_FSE. XX FH Key Location/Qualifiers FH FT source 1..11509 FT /organism="Western equine encephalitis virus" FT /host="Culex tarsalis" FT /isolate="85-452NM" FT /mol_type="genomic RNA" FT /country="USA:New Mexico" FT /collection_date="1985" FT /db_xref="taxon:11039" FT 5'UTR 1..48 FT CDS 49..7452 FT /codon_start=1 FT /transl_except=(pos:5605..5607,aa:OTHER) FT /product="nonstructural polyprotein" FT /note="encodes nsP1, nsP2, nsP3 and nsP4 proteins" FT /db_xref="GOA:C7EPG5" FT /db_xref="InterPro:IPR001788" FT /db_xref="InterPro:IPR002588" FT /db_xref="InterPro:IPR002589" FT /db_xref="InterPro:IPR002620" FT /db_xref="InterPro:IPR007094" FT /db_xref="InterPro:IPR027351" FT /db_xref="InterPro:IPR027417" FT /db_xref="UniProtKB/TrEMBL:C7EPG5" FT /protein_id="ACT75289.1" FT /translation="MERIHVDLDADSPYVKSLQRSFPQFEIEARQVTDNDHANARAFSH FT VATKLIESEVDRDQVILDIGSAPVRHAHSNHRYHCICPMISAEDPDRLQRYAERLKKSD FT ITDKNIASKAADLLEVMSTPDAETPSLCMHTDATCRYFGSVAVYQDVYAVHAPTSIYHQ FT ALKGVRTIYWIGFDTTPFMYKNMAGSYPTYNTNWADERVLEARNIGLGNSDLQESRLGK FT LSILRKKRLQPTNKIIFSVGSTIYTEDRSLLRSWHLPNVFHLKGKSNFTGRCGTIVSCE FT GYVIKKITISPGLYGKVENLASTMHREGFLSCKVTDTLRGERVSFAVCTYVPATLCDQM FT TGILATDVSVDDAQKLLVGLNQRIVVNGRTQRNTNTMQNYLLPVVAQAFSRWAREHRAD FT LDDEKELGVRERTLTMGCCWAFKTQKITSIYKKPGTQTIKKVPAVFDSFVIPRLTSHGL FT DMGFRRRLKLLLEPTVKPAPAITMADVEHLRGLQQEAEEVAAAEEIREALPPLLPEIEK FT ETVEAEVDLIMQEAGAGSVETPRGHIRVTSYPGEEKIGSYAVLSPQAVLNSEKLACIHP FT LAEQVLVMTHKGRAGRYKVEPYHGKVIVPEGTAVPVQDFQALSESATIVFNEREFVNRY FT LHHIAINGGALNTDEEYYKTVKTQDTDSEYVFDIDARKCVKREDAGPLCLTGDLVDPPF FT HEFAYESLRTRPAAPHKVPTIGVYGVPGSGKSGIIKSAVTKKDLVVSAKKENCAEIIRD FT VRRMRCMDVAARTVDSVLLNGVKHPVNTLYIDEAFACHAGTLLALIAIVKPKKVVLCGD FT PKQCGFFNMMCLKVHFNHDICTEVYHKSISRRCTQTVTAIVSTLFYDKRMKTVNPCADK FT IIIDTTGTTKPHKDDLILTCFRGWVKQLQIDYKNHEIMTAAASQGLTRKGVYAVRYKVN FT ENPLYSQTSEHVNVLLTRTEKRIVWKTLAGDPWIKILTAKYPGDFTASLDDWQREHDAI FT MARVLDKPQTADVFQNKXNVCWAKALEPVLATANIVLTRQQWETLHPFKHDRAYSPEMA FT LNFFCTRFFGVDLDSGLFSAPTVALTYRDQHWDNSPGKNMYGLNREVAKELSRRYPCIT FT KAVDTGRVADIRNNTIKDYSPTINVVPLNRRLPHSLIVDHKGQGTTDHSGFLSKMKGKS FT VLVIGDPISIPGKKVESMGPLPTNTIRCDLDLGIPSHVGKYDIIFVNVRTPYKNHHYQQ FT CEDHAIHHSMLTCKAVHHLNTGGTCVAIGYGLADRATENIITAVARSFRFTRVCQPKNT FT AENTEVLFVFFGKDNGNHTHDQDRLGVVLDNIYQGSTRYEAGRAPAYRVIRGDISKSAD FT QAIVNAANSKGQPGSGVCGALYRKWPAAFDRQPIAVGTARLVKHEPLIIHAVGPNFSKM FT PEPEGDLKLAAAYMSIASIVNAERITKISVPLLSTGIYSGGKDRVMQSLHHLFTAFDTT FT DADVTIYCLDKQWETRIIEAIHRKESVEILDDDKPVDIDLVRVHPNSSLAGRPGYSVNE FT GKLYSYLEGTRFHQTAKDIAEIHAMWPNKSEANEQICLYILGESMSSIRSKCPVEESEA FT SAPPHTLPCLCNYAMTAERVYRLRSAKKEQFAVCSSFLLPKYRITGVQKLQCSKPVLFS FT GVVPPAVHPRKYAEIILETPPPPVTTTVICEPTVPERIPSPVISRAPSAESLLSFGGVS FT FSSSATRSSTAWSDYDRRFVVTADVHQANTSTWSIPSAPGLDVQMPSDVTDSHWSVPSA FT SGFEVRTPSVQDLTAECAKPRGLAEIMQDFNTAPFQFLSDHRPVPAPRRRPIPSPRSTV FT SAPPVPKPRRTKYQQPPGVARAISEAELDEYIRQHSNXRYEAGAYIFSSETGQGHLQQK FT SVRQCKLQEPILDRAVHEKYYAPRLDLEREKMLQKKLQLCASEGNRSRYQSRKVENMKA FT ITAERLISGLGTYLSSEVNLVECYRVNYPVPIYSSTVINRFTSAEVAVKTCNLVIQENY FT PTVASYCITDEYDAYLDMVDGASCCLDTATFCPAKLRSYPKKHSYLQPEIRSAVPSPIQ FT NTLQNVLAAATKRNCNVTQMRELPVLDSAAFNVDCFKKYACNDEYWDTFRDNPIRLTTE FT NVTQYVTKLKGPKAAALFAKTHNLKPLQEIPMDQFVMDLKRDVKVTPGTKHTEERPKVQ FT VIQAADPLATAYLCGIHRELVRRLNAVLLPNIHTLFDMSAEDFDAIIAGHFHHGDPVLE FT TDIASFDKSEDDAIAISALMILEDLGVDQPLLDLIEAAFGNITSVHLPTGTRFKFGAMM FT KSGMFLTLFVNTLVNIMIASRVLRERLTTSACAAFIGDDNIVHGVVSDTLMAERCATWL FT NMEVKIIDAVIGIKAPYFCGGFILVDQITGTACRVADPLKRLFKLGKPLSVDDTQDCDR FT RRALHDEAMRWNRIGITDELVKAVESRYEIILAGLIITSLSTLAESVKNFKSIRGSPIT FT LYG" FT CDS 7497..11207 FT /codon_start=1 FT /product="structural polyprotein" FT /note="encodes nucleocapsid, E3, E2, 6K and E1 proteins" FT /db_xref="GOA:C7EPG6" FT /db_xref="InterPro:IPR000336" FT /db_xref="InterPro:IPR000930" FT /db_xref="InterPro:IPR000936" FT /db_xref="InterPro:IPR002533" FT /db_xref="InterPro:IPR002548" FT /db_xref="InterPro:IPR009003" FT /db_xref="InterPro:IPR014756" FT /db_xref="InterPro:IPR036253" FT /db_xref="InterPro:IPR038055" FT /db_xref="InterPro:IPR042304" FT /db_xref="InterPro:IPR042305" FT /db_xref="InterPro:IPR042306" FT /db_xref="UniProtKB/TrEMBL:C7EPG6" FT /protein_id="ACT75290.1" FT /translation="MFPYPQLNFPPVYPTNPMAYRDPNPPRRRWRPFRPPLAAQIEDLR FT RSIANLTFKQRSPNPPPGPPPKKKKSAPKPKPTQPKKKKQQAKRTKRKPKPGKRQRMCM FT KLESDKTFPIMLNGQVNGYACVVGGRLMKPLHVEGKIDNEQLAAVKLKKASKYDLEYGD FT VPQNMKSDTLQYTSDKPPGFYNWHHGAVQYENGRFTVPRGVGGKGDSGRPILDNRGRVV FT AIVLGGANEGTRTALSVVTWNQKGVTVWDPPEGSEPWSLVTALCVLSNVTFPCDKPPVC FT YSLAPERTLDVLEENVDNPNYDTLLENVLKCPSRRPKRSITDDFTLTSPYLGFCPYCRH FT STPCFSPIKIENVWDESDDGSIRIQVSAQFGYNQAGTADVTKFRYMSFDHDHDIKEDSM FT EKIAISTSGPCRRLGHKGYFLLAQCPPGDSVTVSITSGTSENSCTVERKIRRKFVGREE FT YLLPPIHGKLVKCHVYDHLKETSAGYITMHRPGPHAYKSYLEEASGEVYIKPPSGKNVT FT YECKCGDYSTGIVSTRTKMNGCTKAKQCIAYKSDQTKWVFNSPDLIRHTDHSVQGKLHI FT PFRLTPTVCPVPLAHTPTVTKWFKGITLHLTATRPTLLTTRKLGLRADATAEWITGTTS FT RNFSVGREGLEYVWGNHEPVRVWAQESAPGDPHGWPHEIIIHYYHRHPVYTVIVLCGVA FT LAILVGTASSAACIAKARRDCLTPYALAPNATVPTALVVLCCIRPTNAETLGETLNHLW FT FNNQPFLWAQLCIPLAALVILFRCFSCCMPFLLVAGVCLGKVDAFEHATTVPNVPGIPY FT KALVERAGYAPLNLEITVVSSELTPSTNKEYVTCKFHTVIPSPQVKCCGSLECKASSRA FT DYTCRVFGGVYPFMWGGAQCFCDSENTQLSEAYVEFAPDCTIDHAVALKVHTAALKVGL FT RIVYGNTTAHLDTFVNGVTPGSSRDLKVIAGPISAAFSPFDHKVVIRKGLVYNYDFPEY FT GAMKPGAFGDIQASSLDATDIVARTDIRLLKPSVKNIHVPYTQAVSGYEMWKNNSGRPL FT QETAPFGCKIEVEPLRASNCAYGHIPISIDIPDAAFVRSSESPTILEVSCTVADCIYSA FT DFGGSLTLQYKADREGHCPVHSHSTTAVLKEATTHVTAVGSITLHFSTSSPQANFIVSL FT CGKKSTCNAECKPPADHIIGEPHKVDQEFQAAVSKTSWNWLLALFGGASSLIVVGLIVL FT VCSSMLINTRR" FT 3'UTR 11208..11509 XX SQ Sequence 11509 BP; 3244 A; 2841 C; 2825 G; 2590 T; 9 other; atagggcacg gtatagagga acctacccta cagactaatc gatccaatat ggaaagaatt 60 cacgttgact tagatgctga cagcccgtat gtcaagtcgt tacagcggag ctttccacaa 120 tttgagatcg aagcaaggca ggtcactgac aatgaccatg ccaatgccag agcgttttcg 180 catgtggcaa caaagctcat tgagagcgaa gtcgaccggg accaagttat cttggacatt 240 ggaagtgcgc ccgtcagaca tgcacattcc aatcaccgct atcattgtat ctgccctatg 300 ataagcgctg aagacccgga cagactacaa cggtatgcag aaagacttaa gaaaagtgac 360 attaccgaca agaacatagc ctctaaggcg gcagacctgc tggaagtcat gtcaacacca 420 gacgcagaga ctccatctct gtgtatgcac acagacgcca cgtgtaggta ctttggaagt 480 gtagcagtat accaagatgt gtacgcagtc catgcaccga catcaatcta ccaccaggcg 540 cttaaaggag ttaggacaat ttactggata ggctttgaca cgaccccttt tatgtacaaa 600 aacatggcag gttcttaccc tacttacaac acgaactggg ctgacgagag agtattggaa 660 gcacgtaaca ttggcctcgg taactcagat cttcaggaga gcaggcttgg aaaactctca 720 atccttagga agaagaggct ccaacctact aataagatca tattctcggt tggttcaaca 780 atctacacag aagatagatc actgttacgt agctggcatc ttccaaacgt gttccacttg 840 aaaggaaagt ctaacttcac aggtagatgt gggaccattg tcagctgtga agggtacgtc 900 ataaaaaaaa taacgatcag cccaggacta tacggtaaag ttgagaactt ggcgtccaca 960 atgcatcgcg agggtttctt gagttgcaaa gtcacagata cgctgcgcgg cgagagggtt 1020 tcttttgctg tgtgtacgta tgtaccagcc acactttgcg atcagatgac agggattctg 1080 gcaactgacg ttagtgtgga tgacgcacaa aaactattgg ttgggctcaa ccaaaggatt 1140 gtcgtcaatg gtaggacgca aagaaatact aacacaatgc agaactatct attaccagtg 1200 gtcgcccagg cgttttccag gtgggcgcgt gaacatcgtg ccgacttgga cgacgagaaa 1260 gaactagggg tgcgggagcg cactcttact atgggctgct gctgggcttt caagacccag 1320 aaaatcacat ccatctacaa gaagcctggt acgcaaacaa ttaagaaagt acctgccgtc 1380 tttgactcat ttgtgattcc acgccttacc agccacgggc tcgatatggg cttccgccgt 1440 aggctcaagc tgctgcttga accaactgtc aaacccgcac cggctattac aatggccgat 1500 gtggagcatc tgcgtggctt acagcaagaa gctgaagaag tggctgcagc ggaagagatc 1560 agagaagccc tgccaccctt gctccctgaa atagaaaaag agaccgtaga ggcagaagta 1620 gacctcatta tgcaagaggc aggagcaggt agcgtggaga caccacgagg acacatcagg 1680 gtgacaagtt acccaggcga agagaagatt gggtcttacg ctgtactttc accccaggcg 1740 gtattgaata gtgaaaaact ggcgtgtatt cacccattgg cggaacaagt actggtaatg 1800 actcacaaag gtagggctgg gagatacaag gtcgagccat accacggtaa ggtcattgta 1860 ccagaaggga cggcggtccc tgttcaagac ttccaggcat tgagtgagag cgctacgatc 1920 gttttcaacg agagggagtt cgtaaacaga tacctgcatc acatcgcaat caacggagga 1980 gcgctaaaca ctgacgaaga gtactataag actgtaaaga ctcaggacac agactcagaa 2040 tacgtcttcg acattgacgc acgaaagtgt gttaagcgag aagacgcagg tccgctgtgc 2100 ctaaccggtg atctggtaga tccgccattt cacgagtttg cgtacgagag tcttaggaca 2160 cgaccagcag cacctcacaa agtcccaacc atcggagtct atggagtgcc aggttcaggt 2220 aaatctggaa tcatcaaaag cgctgtgact aagaaagatc tggttgtgag tgcgaagaag 2280 gaaaactgcg cagaaatcat cagggatgta aggaggatga gatgtatgga tgttgctgct 2340 aggactgtag attcagtgct gctaaatggg gttaagcacc ccgttaacac tctgtacatt 2400 gatgaggcat ttgcctgcca tgcagggacg ctgctggcac tgattgccat cgtcaaacct 2460 aagaaagtgg tattgtgcgg ggacccaaaa caatgcggct tctttaacat gatgtgcctg 2520 aaagtacatt ttaaccatga catatgcact gaagtgtacc ataaaagcat ctctaggagg 2580 tgcacacaga ctgtaaccgc catcgtctcc acgctcttct acgacaagcg aatgaagacg 2640 gttaacccat gtgctgacaa aatcatcata gataccacag ggaccacaaa gccgcacaaa 2700 gatgatctga ttctaacctg tttcagagga tgggtgaaac agctacagat tgactataaa 2760 aatcatgaaa tcatgactgc ggctgcatcg caaggactta cgcggaaagg cgtttatgct 2820 gtcaggtaca aagtcaacga gaatccactc tactcgcaga cttctgagca cgtgaacgtg 2880 ttacttacac gcacagaaaa acgcattgtc tggaagacgc tagctggtga tccctggata 2940 aagatactta cagctaaata tcccggggat ttcacggctt cattggacga ctggcagcga 3000 gaacacgatg ccattatggc acgcgttctt gataagccgc agacagctga tgtgttccag 3060 aataaggkga acgtctgctg ggcgaaggct ctagagccag tcttggccac ggccaacatt 3120 gtgctgacga gacagcagtg ggagacgttg cacccattca agcatgacag agcgtactca 3180 cctgaaatgg cactgaactt cttttgcacc aggttctttg gagtagacct ggacagtggg 3240 ttgttttccg ctcctaccgt cgcacttact tatagggatc agcactggga taactcgcca 3300 gggaagaaca tgtatgggct taatagagag gtagcaaagg agttgtcacg gcgatatccg 3360 tgcatcacaa aagcggttga cacaggcagg gtagctgata taaggaataa taccatcaag 3420 gactactctc caacaattaa tgtggttcca ttaaatcgtc ggttgcccca ctcgctgatc 3480 gttgaccaca aaggacaggg tacaactgat cacagcggat tcctatctaa gatgaagggc 3540 aaatctgtgt tggtgatcgg cgatcctatc agcattccag ggaagaaagt agagtccatg 3600 ggtccattgc ccactaatac catcaggtgt gatctcgatt tgggaatacc tagccatgtc 3660 ggtaaatatg acattatatt tgtcaatgtt aggaccccgt acaagaacca tcactaccaa 3720 cagtgcgagg atcacgctat ccaccacagc atgctaacgt gtaaggctgt ccaccacctg 3780 aacactggcg gaacatgtgt ggctataggg tatgggcttg ctgatcgcgc aaccgagaat 3840 atcatcactg cggtagcgcg ctcatttagg tttacccgtg tctgtcagcc taagaacact 3900 gccgaaaata ctgaggttct cttcgtgttc ttcggcaagg acaacggcaa ccacacacat 3960 gaccaggaca gactcggtgt agtgcttgac aacatctacc aagggtcaac caggtacgag 4020 gcagggagag ctccagcgta cagagtgatc agaggtgaca ttagcaagag cgctgaccaa 4080 gctatcgtta atgctgctaa tagcaaaggt caaccaggtt ccggagtgtg cggtgcactg 4140 taccgaaaat ggccggctgc ttttgataga cagccaatag ctgtcgggac ggctaggctt 4200 gtgaagcacg aaccgctcat catacatgct gtaggaccca atttttctaa gatgccggaa 4260 ccggagggcg accttaagct cgcagctgcc tacatgagca tagcgtcaat cgtcaacgct 4320 gaacggatta ctaaaatatc agtaccgcta ctgtcaactg gcatctattc tggtggcaaa 4380 gatcgagtga tgcaatcatt gcatcacctg ttcactgctt tcgacactac ggatgccgat 4440 gtcaccatat attgcttgga taaacaatgg gagaccagga taatcgaggc cattcaccgc 4500 aaagaaagcg tcgaaatact ggatgatgac aagccagtag acattgactt ggtcagggtc 4560 cacccaaaca gctctttggc aggcagacct ggttactccg tcaatgaggg caagctgtat 4620 tcatacctgg aaggtacacg attccatcag accgccaagg acattgccga aatccatgca 4680 atgtggccca acaaatctga ggctaatgag cagatttgct tgtacatcct gggggagagt 4740 atgtccagca tccgctccaa atgcccagta gaggagtcag aggcgtctgc tccacctcat 4800 acactgccgt gcctgtgtaa ttacgctatg acggctgagc gcgtatacag gttgcgctct 4860 gcgaagaaag aacagttcgc cgtatgctca tcattcctgt tgccgaagta caggatcaca 4920 ggcgtgcaga agctacaatg cagcaaacca gtcctgtttt caggcgtcgt accaccggct 4980 gtacacccca ggaagtacgc ggaaataatt ctagaaacgc caccaccgcc agtaacgaca 5040 accgtaatat gtgaacccac tgtgccagaa cgtataccca gtccggtgat ttctagagca 5100 ccaagtgcgg aatcactgct atcttttggc ggcgtctcgt tctctagctc tgccacacgc 5160 tcgtcaaccg cctggagcga ctatgacagg cggtttgtgg ttacagctga cgtgcatcaa 5220 gcgaacacgt ctacgtggag catccctagt gctcctggct tggacgtcca gatgccttct 5280 gacgtcactg attcccactg gagtgttcca agtgcatcag gcttcgaagt gagaacacca 5340 tctgtacagg acctaactgc ggagtgtgca aagcctcgtg ggctggccga aataatgcaa 5400 gacttcaata ctgccccttt ccagtttctt tcggaccaca gaccagtacc ggcaccacgg 5460 agacgcccca tcccatcacc tagatcgacg gtttccgcac ctccagttcc aaagccacgc 5520 aggactaagt accaacaacc accaggagtc gctagagcga tctcagaagc ggagttggac 5580 gagtacatcc gtcaacactc caattgacgg tatgaagcgg gagcgtatat tttctcatcg 5640 gaaacaggcc aaggtcacct tcaacagaaa tcagtacgtc aatgtaaact acaagaacct 5700 atattggatc gggccgtcca tgagaagtat tacgccccgc gcctcgatct cgaaagagag 5760 aaaatgttac agaagaaact gcaattatgc gcctctgaag gaaatagaag caggtatcaa 5820 tcacgaaaag tagaaaatat gaaagcaatt acagcggagc gactcatttc tggattgggc 5880 acatatctat catcagaagt gaatcttgtc gagtgttaca gagtcaatta tcctgtacca 5940 atctactcgt caacggtaat taacaggttt acatctgcag aggtcgcggt taaaacgtgc 6000 aacttagtta tccaagagaa ttaccctaca gtagccagtt attgtataac agatgaatac 6060 gatgcgtatc ttgacatggt ggacggcgca tcgtgctgtc tagatacagc cactttttgt 6120 ccggctaaac tgagaagcta cccaaagaag catagctatt tgcagccaga gataagatca 6180 gccgtcccat cgcctataca gaatacatta caaaatgtat tggctgcagc tactaaaagg 6240 aattgcaacg ttacccaaat gcgagaatta cctgtcttag attcggcggc atttaacgtt 6300 gattgtttca agaaatacgc atgcaatgat gagtattggg atacctttcg cgataaccct 6360 attcggctaa ctacagagaa cgttacgcaa tatgtgacaa agctgaaagg gccgaaagca 6420 gcagcattgt ttgcgaaaac tcacaatcta aaaccgttgc aggagatacc aatggatcaa 6480 ttcgtcatgg atctaaaaag agatgtcaaa gttactcccg gcacgaaaca tacagaggag 6540 cggcctaagg tgcaggttat tcaggctgca gacccccttg ctaccgctta cctttgcggg 6600 atccatcggg aattagtccg tagactgaat gctgtgcttc tgccgaatat ccatactctc 6660 ttcgacatgt cagcggaaga ttttgatgcg attattgctg gacatttcca ccacggcgac 6720 ccagtattgg aaacggacat cgcgtcgttt gataaaagcg aagacgacgc tatcgccatt 6780 tcggcgttga tgatccttga ggacttaggc gtcgaccaac cgctcttaga tttgatagag 6840 gcggcgttcg gcaatatcac atctgtgcac ctacctacag gaacgaggtt taaatttggt 6900 gccatgatga aatccggcat gttcttaacg ctgtttgtca acacactagt caatatcatg 6960 attgctagca gagtactacg tgaacggtta accacgtcag cgtgcgcggc ctttatcggc 7020 gacgataaca tagtgcatgg tgtcgtctcc gacaccttga tggcggagag atgcgccact 7080 tggctgaaca tggaagtaaa aattattgat gcagtcattg gtatcaaagc accctacttc 7140 tgcgggggat ttatcctggt ggaccagata acaggcacag cctgcagggt cgcagaccct 7200 ctaaaaaggc tttttaagct tggaaaaccg ttgtcagttg atgacaccca agactgcgac 7260 cgccgccggg cactgcatga tgaagcaatg cgatggaaca gaatcggaat tacggacgag 7320 ttggtgaagg ccgtagaatc cagatacgag atcatactgg caggcctgat catcacgtct 7380 ctgtccacgt tagccgaaag cgttaagaac ttcaagagca taagagggag cccaatcacc 7440 ctctacggct gacctaaata ggtgacgtag tagacacgca cctacccatc gccagaatgt 7500 ttccataccc tcagctgaac tttccaccag tttaccctac aaatccgatg gcttaccgag 7560 atccaaaccc tcctaggcgc cgctggaggc cgtttcggcc cccgctggct gctcaaatcg 7620 aagatcttag gaggtcgata gccaacttga ctttcaaaca acgatcacct aatccgccgc 7680 caggtccacc gccaaagaag aagaagagtg ctcctaagcc aaaacctact cagcctaaaa 7740 agaagaagca gcaagccaag aggacgaaac gtaagcctaa accagggaaa cgacagcgta 7800 tgtgtatgaa gttggagtcg gacaagacat ttccgatcat gctgaacggc caagtgaatg 7860 gatacgcttg cgttgtcgga ggaaggctga tgaaaccact ccacgttgaa ggaaaaattg 7920 ataatgagca attagcggcc gtgaaattga agaaggctag caagtacgac ttggagtatg 7980 gcgacgttcc ccagaatatg aaatcagaca cgctgcagta caccagcgac aaaccaccgg 8040 gcttctacaa ctggcaccac ggcgcagtcc agtatgagaa tgggagattc accgtaccga 8100 gaggagtggg cgggaaaggc gacagcggaa gaccgatcct ggacaacaga ggcagagttg 8160 tggctattgt tctaggaggt gcaaatgagg gcacgcgtac ggcgctttca gtggtcactt 8220 ggaaccagaa aggggtgacc gtttgggatc cccccgaagg ttctgaaccg tggtcactag 8280 ttacagcgct gtgcgtgctt tcgaatgtca cgttcccatg cgacaaacca cccgtgtgct 8340 attcactggc gccagaacga acactcgacg tgctcgaaga gaacgtcgac aatccaaatt 8400 acgacacgct gctggagaac gtcttgaaat gtccatcacg ccggcccaaa cgaagcatta 8460 ccgatgactt cacactgacc agtccctact tggggttctg cccgtattgc agacactcaa 8520 cgccgtgttt cagcccaata aaaattgaga acgtgtggga cgaatctgat gatggatcga 8580 ttagaatcca ggtctcggca caattcggct acaatcaggc aggcactgca gatgtcacca 8640 aattccgtta catgtctttc gaccacgacc atgacatcaa ggaagacagt atggagaaaa 8700 tagctatcag cacatctgga ccctgccgtc gtcttggcca caaagggtat ttcctgttag 8760 ctcaatgtcc tccaggtgac agtgtaaccg tcagtatcac gagcggaaca tctgagaact 8820 catgcaccgt ggagagaaag atcaggagga agtttgtcgg tagagaggag tacttgctcc 8880 cacccatcca tggaaagctg gtaaagtgcc acgtttacga tcacttgaaa gagacgtctg 8940 ccgggtacat aaccatgcac aggccaggcc cacacgcgta taagtcctat ctggaggaag 9000 cgtcaggcga agtgtacatt aaaccacctt ctggcaagaa cgtcacctac gaatgtaagt 9060 gtggcgacta cagcacaggt atcgtgagca cgcgaacgaa gatgaacggc tgcactaaag 9120 caaaacagtg cattgcctac aagagcgacc aaacgaaatg ggtcttcaac tcgccggatc 9180 ttattaggca cacagaccac tcagtgcaag gtaaactgca cattccattc cgcttgacac 9240 cgacagtctg cccggttccg ttagctcaca cgcctacagt cacgaagtgg ttcaaaggca 9300 tcaccctcca cctgactgca acgcgaccaa cattgctgac aacgagaaaa ttggggctgc 9360 gagcagacgc aacagcagaa tggattacag ggactacatc caggaatttt tctgtggggc 9420 gagaagggct ggagtacgta tggggcaacc atgaaccagt cagagtctgg gcccaggagt 9480 cggcaccagg cgacccacat ggatggccgc atgagattat catccactat tatcatcggc 9540 atccagtcta caccgtcatt gtgctgtgtg gtgtcgctct tgctatcctg gtaggcactg 9600 catcgtcagc agcttgtatc gccaaagcaa gaagagactg cctgacgcca tacgcgcttg 9660 caccgaacgc aacggtaccc acagcattag tggttttgtg ctgcattcgg ccaaccaacg 9720 ctgaaacact tggagaaact ttgaaccatc tgtggtttaa caaccaaccg tttctctggg 9780 cacagttgtg cattcctctg gcagctcttg ttattctgtt ccgctgcttt tcatgctgca 9840 tgcctttttt attggttgca ggcgtctgcc tggggaaggt agacgccttc gaacatgcga 9900 ccactgtgcc aaatgttccg gggatcccgt ataaggcgtt ggtcgaacgt gcaggttacg 9960 cgccacttaa cctggagatc acggtcgtct catcggaatt aacaccctca actaacaagg 10020 agtacgtgac ctgcaaattc cacacagtca ttccttcacc acaagttaaa tgctgcgggt 10080 ccctcgagtg taaggcatcc tcaagggcgg attacacatg ccgcgttttt ggcggtgtgt 10140 accctttcat gtggggaggc gcacaatgct tctgtgacag tgagaacaca caactgagtg 10200 aggcatacgt cgagttcgct ccagactgca ctatagatca cgcagtcgca ctaaaagttc 10260 acacagctgc tctgaaagtc ggcctgcgta tagtatacgg taataccacc gcgcacctgg 10320 atacgttcgt caatggcgtc acgccaggtt cctcacggga cctgaaggtc atagcagggc 10380 cgatatcagc cgctttttca ccctttgacc ataaggtcgt catcagaaag gggcttgttt 10440 acaactacga cttccctgag tatggtgcta tgaaaccagg agcgttcggc gatattcaag 10500 catcctctct tgatgctaca gacatagtag cccgcactga catacggctg ctgaagcctt 10560 ctgtcaagaa catccacgtc ccctacaccc aagcagtatc agggtatgaa atgtggaaga 10620 acaactcagg acgacccctg caagaaacag caccatttgg atgtaaaatt gaagtggagc 10680 ctctgcgagc gtctaactgt gcttacgggc acatccctat ctcgattgac atccctgatg 10740 cagctttcgt gagatcatca gaatcaccaa caattttaga agttagctgc acagtagcag 10800 actgcattta ttctgcagac tttggtggtt ctctaacatt acagtacaaa gctgacaggg 10860 agggacattg tccagttcac tcccactcca cgacagctgt tttgaaggaa gcgaccacac 10920 atgtgactgc cgtaggcagc ataacactac attttagcac atcgagccca caagcaaatt 10980 ttatagtttc gctatgcggc aagaagtcca cctgcaatgc tgaatgtaaa ccaccggccg 11040 accacataat tggagaaccg cataaagtcg accaagaatt ccaagcggca gtttccaaaa 11100 catcttggaa ctggctgctt gcactgtttg ggggagcatc atccctcatt gttgtaggac 11160 ttatagtgtt ggtctgcagc tctatgctta taaacacacg tagatgactg agcgcggaca 11220 ctgacatagc ggtaaaaact cgatgtactt ccgaggaagc gtggtgcata atgccmcgcg 11280 ccgcttgacm ctaaaactcg atgtattccc gaggaagcmc agtgcataat gctgtgcagt 11340 gtcmcattaa tcgcatatcm cactacatat taacaacmct atatcacttt tataagactc 11400 actatgggtc tctaatatac mctacacata ttttacttaa aaacrctata cacactttat 11460 aagttctttt ataatttttc ttttgttttt attttgtttt taaaatttc 11509 // ID GQ287654; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287654; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-21 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 34e228a8e7b4be4fd5f2c3230ead1384. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-21" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPG7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPG7" FT /protein_id="ACT82518.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPG8" FT /protein_id="ACT82517.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacgccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287655; SV 1; linear; genomic RNA; STD; VRL; 1099 BP. XX AC GQ287655; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1099 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1099 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5e07965bec2ecfddbf406ab0ada7d01c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1099 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1099 FT /gene="pol" FT CDS <1..>1099 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPG9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPG9" FT /protein_id="ACT82519.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQWPLTAE FT KIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFW FT EVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGIRYQYN FT VLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAKVEELR FT QHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPH0" FT /protein_id="ACT82520.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1099 BP; 421 A; 198 C; 234 G; 246 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg acctacacct gtcaacataa 360 ttggaagaaa tctgttgact cagcttggtt gtactttaaa tttccccatt agtcctattg 420 aaactgtacc agtaaagtta aagccaggaa tggatgggcc aaaagttaag caatggccat 480 tgacagcaga aaaaataaaa gcattaacag aaatttgtac agaaatggaa aaagaaggaa 540 aaatttcaaa aatagggcct gaaaatccat acaatactcc agtatttgcc ataaagaaaa 600 aagacagtac taaatggaga aaattagtag atttcagaga acttaataag agaactcaag 660 acttctggga agttcaatta ggaataccac atcccgcagg gttaaaaaag aaaaaatcag 720 taacagtact agatgtgggt gatgcatatt tttcagttcc cttagataaa gaattcagaa 780 agtatactgc atttaccata cctagtataa acaatgagac accagggatt agataccagt 840 acaatgtgct gccacaggga tggaaaggat caccagcaat attccaaagt agcatgacaa 900 aaatcctaga gccttttaga aaacaaaatc cagacctagt tatctatcaa tacatggatg 960 atttgtatgt aggatctgac ttagaaatag ggcagcatag agcaaaagta gaggaactga 1020 gacaacatct gttggggtgg gggtttacca caccagacaa aaaacatcag aaagaacctc 1080 cattcctttg gatgggtta 1099 // ID GQ287656; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287656; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4fc0a579d7befd7793cf9b854e139d58. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPH1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPH1" FT /protein_id="ACT82521.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPH2" FT /protein_id="ACT82522.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287657; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287657; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 70c7dca0ef64b2122bb9500fb87a670f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPH3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPH3" FT /protein_id="ACT82523.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPPPAGLKKKKSVTVLDGGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPH4" FT /protein_id="ACT82524.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 202 C; 241 G; 250 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac ccaagacttc tgggaagttc aattaggaat accccctccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg ggggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287658; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287658; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; e3f9c2e2ea3557539437de2af0da019b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPH5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPH5" FT /protein_id="ACT82525.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPH6" FT /protein_id="ACT82526.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 198 C; 239 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287659; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287659; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 55a5ef1349f1c93dc15a116a3bdd695f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPH7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPH7" FT /protein_id="ACT82527.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQTKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPH8" FT /protein_id="ACT82528.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaacaa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287660; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287660; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-11 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 841fff59c2a6ad0ce329223ada1dc93f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-11" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPH9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPH9" FT /protein_id="ACT82529.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIEVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPI0" FT /protein_id="ACT82530.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 198 C; 242 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat agaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga gctgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287661; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287661; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4fc0a579d7befd7793cf9b854e139d58. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPI1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPI1" FT /protein_id="ACT82531.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPI2" FT /protein_id="ACT82532.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287662; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287662; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; de4bd78f2e30a67e08fb205be8dbd3d5. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPI3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPI3" FT /protein_id="ACT82533.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTGLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPI4" FT /protein_id="ACT82534.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 198 C; 242 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagggtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287663; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287663; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 6632f091a9d6344e9fae3a22226c36ad. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPI5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPI5" FT /protein_id="ACT82535.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSFPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKRKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPI6" FT /protein_id="ACT82536.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agttttccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaggaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287664; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287664; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ca13107d02c6b259baefeac728f13285. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPI7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPI7" FT /protein_id="ACT82537.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKTIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDGTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPI8" FT /protein_id="ACT82538.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aaactatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac ggtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287665; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287665; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; a256ce928afb6cbf7b1a3e4879011934. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPI9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPI9" FT /protein_id="ACT82539.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPJ0" FT /protein_id="ACT82540.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 239 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287666; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287666; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 36430af9a69ce2cdb74f269c4ef84daa. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPJ1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPJ1" FT /protein_id="ACT82541.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPJ2" FT /protein_id="ACT82542.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 198 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287667; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287667; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ad788426fa68460568bb4c319b98c864. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPJ3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPJ3" FT /protein_id="ACT82543.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILDPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPJ4" FT /protein_id="ACT82544.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 426 A; 198 C; 237 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg gacctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagatcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287668; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287668; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-14 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4fc0a579d7befd7793cf9b854e139d58. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-14" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPJ5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPJ5" FT /protein_id="ACT82545.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPJ6" FT /protein_id="ACT82546.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287669; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287669; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-19 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 3164ab5f358e9b64d2ec48b3a0ac02d9. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-19" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPJ7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPJ7" FT /protein_id="ACT82547.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPJ8" FT /protein_id="ACT82548.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 197 C; 238 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac aaggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287670; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287670; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-15 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 6f15fe67f5fc8282d0d554953dfc3bc5. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-15" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPJ9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPJ9" FT /protein_id="ACT82549.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPK0" FT /protein_id="ACT82550.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcagga gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287671; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287671; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-10 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 502ff2afb0f7fafe335364177fc005f1. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPK1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPK1" FT /protein_id="ACT82551.1" FT /translation="SEQNRTISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPK2" FT /protein_id="ACT82552.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 238 G; 252 T; 0 other; attcagagca gaacagaacc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 gaattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287672; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287672; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4fc0a579d7befd7793cf9b854e139d58. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPK3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPK3" FT /protein_id="ACT82553.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPK4" FT /protein_id="ACT82554.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287673; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287673; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-20 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4fc0a579d7befd7793cf9b854e139d58. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-20" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPK5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPK5" FT /protein_id="ACT82555.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPK6" FT /protein_id="ACT82556.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287674; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287674; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 0551b6f7757ecb63a538a0c4afc0ae80. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPK7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPK7" FT /protein_id="ACT82557.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPKMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPK8" FT /protein_id="ACT82558.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 426 A; 198 C; 237 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggtaggg ggacaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaaaaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287675; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287675; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_051700p-23 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 8dfba872159106a53be9f8d0d24ae698. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_051700p-23" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="17-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPK9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPK9" FT /protein_id="ACT82559.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPL0" FT /protein_id="ACT82560.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 198 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttga 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287676; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287676; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-15 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4bad3a8fba3c86341b20b142e8b40c82. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-15" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPL1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPL1" FT /protein_id="ACT82561.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPL2" FT /protein_id="ACT82562.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accccatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287677; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287677; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4bad3a8fba3c86341b20b142e8b40c82. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPL3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPL3" FT /protein_id="ACT82563.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPL4" FT /protein_id="ACT82564.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accccatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287678; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287678; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 91d465b0a8a6b07508698a0a5705cc34. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPL5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPL5" FT /protein_id="ACT82565.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPL6" FT /protein_id="ACT82566.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287679; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287679; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 91d465b0a8a6b07508698a0a5705cc34. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPL7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPL7" FT /protein_id="ACT82567.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPL8" FT /protein_id="ACT82568.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287680; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287680; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 91d465b0a8a6b07508698a0a5705cc34. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPL9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPL9" FT /protein_id="ACT82569.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPM0" FT /protein_id="ACT82570.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287681; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287681; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; a44f7da5399738cd9de5db8b89e0a7cc. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPM1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPM1" FT /protein_id="ACT82571.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLATIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPM2" FT /protein_id="ACT82572.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSPQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgccacaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287682; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287682; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 85dfb8290688679c704fd8fb1497a3da. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPM3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPM3" FT /protein_id="ACT82573.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPM4" FT /protein_id="ACT82574.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 198 C; 239 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actaagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287683; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287683; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 182d4719e1cd9734e35574ec30b1bffc. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPM5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPM5" FT /protein_id="ACT82575.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPM6" FT /protein_id="ACT82576.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 197 C; 241 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcggaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttt agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287684; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287684; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 6ffd053c98992a43e76e83c42037f453. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPM7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPM7" FT /protein_id="ACT82577.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPPPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPM8" FT /protein_id="ACT82578.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 200 C; 240 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accccctccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287685; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287685; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-10 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c3d61199c90851900da3a97a2c35d8cb. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPM9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPM9" FT /protein_id="ACT82579.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVRQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKQKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYIGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPN0" FT /protein_id="ACT82580.1" FT /translation="VQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 240 G; 254 T; 0 other; gttcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaggcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aacagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatataggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287686; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287686; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-11 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 7f3d99cf4764cf6e1848a14bc1947bf4. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-11" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPN1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPN1" FT /protein_id="ACT82581.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNPLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPN2" FT /protein_id="ACT82582.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 427 A; 199 C; 236 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaaccc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287687; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287687; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 71e83228b2ba10a711ace4e81ce3a04b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPN3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPN3" FT /protein_id="ACT82583.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPN4" FT /protein_id="ACT82584.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 200 C; 239 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac ccaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287688; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287688; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c4dc8c993200949eb5467c4c1aea464f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPN5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPN5" FT /protein_id="ACT82585.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPN6" FT /protein_id="ACT82586.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287689; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287689; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-23 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; a36727ebac5073adb419e3beec8d097f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-23" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPN7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPN7" FT /protein_id="ACT82587.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPN8" FT /protein_id="ACT82588.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 197 C; 238 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287690; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287690; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-20 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 0acd14612219146cb8269d2f6a5142a0. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-20" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPN9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPN9" FT /protein_id="ACT82589.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILESFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPP0" FT /protein_id="ACT82590.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 197 C; 241 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagtctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287691; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287691; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-2 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 51245e3b51fd4b69cdae196a34520bee. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPP1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPP1" FT /protein_id="ACT82591.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPP2" FT /protein_id="ACT82592.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287692; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287692; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-21 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b4f9e01925423f8f45ec999367fd5050. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-21" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPP3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPP3" FT /protein_id="ACT82593.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPP4" FT /protein_id="ACT82594.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 197 C; 239 G; 255 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287693; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287693; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-19 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; caa0452a0289bb5eb155875d658b3338. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-19" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPP5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPP5" FT /protein_id="ACT82595.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDGTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPP6" FT /protein_id="ACT82596.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 198 C; 240 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac ggtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287694; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287694; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 9dc1ea2fbb198fa8d5a1f4154e65c579. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPP7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPP7" FT /protein_id="ACT82597.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPP8" FT /protein_id="ACT82598.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 198 C; 239 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actaagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287695; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287695; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4c306a9e3b217e2d018dbd8d47b7d1b6. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPP9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPP9" FT /protein_id="ACT82599.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPQ0" FT /protein_id="ACT82600.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 197 C; 241 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287696; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287696; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ab26aeb0fc21486af9761e2657dcfd8e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPQ1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPQ1" FT /protein_id="ACT82601.1" FT /translation="SEQNRAISPTGREHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPQ2" FT /protein_id="ACT82602.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 197 C; 239 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccggaagaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggagggtt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287697; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287697; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_102700p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 0be69f56965713537da5956dcafc4a6f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_102700p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="27-Oct-2000" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPQ3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPQ3" FT /protein_id="ACT82603.1" FT /translation="SEQTRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELKQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPQ4" FT /protein_id="ACT82604.1" FT /translation="LQSRPEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 200 C; 239 G; 253 T; 0 other; cttcagagca gaccagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaaaga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaaacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287698; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287698; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 9aa4ce496410d3d7d34d04181dfa3a46. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPQ5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPQ5" FT /protein_id="ACT82605.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPQ6" FT /protein_id="ACT82606.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287699; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287699; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-19 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 91d465b0a8a6b07508698a0a5705cc34. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-19" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPQ7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPQ7" FT /protein_id="ACT82607.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPQ8" FT /protein_id="ACT82608.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287700; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287700; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-14 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-14" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPQ9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPQ9" FT /protein_id="ACT82609.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPR0" FT /protein_id="ACT82610.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287701; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287701; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 948ceb09097727f02b2affe7bc02f714. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPR1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPR1" FT /protein_id="ACT82611.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFREPNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPR2" FT /protein_id="ACT82612.1" FT /translation="IQSRTEPSALPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccta ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaaccga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287702; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287702; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPR3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPR3" FT /protein_id="ACT82613.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPR4" FT /protein_id="ACT82614.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287703; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287703; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPR5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPR5" FT /protein_id="ACT82615.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPR6" FT /protein_id="ACT82616.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287704; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287704; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-23 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 632476de9c1f8970e4b3219d4cdf5ffd. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-23" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPR7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPR7" FT /protein_id="ACT82617.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPR8" FT /protein_id="ACT82618.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 239 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcaaatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287705; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287705; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-15 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d384c5f45426b9d6316004d9b743da37. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-15" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPR9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPR9" FT /protein_id="ACT82619.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKIPEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPS0" FT /protein_id="ACT82620.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 200 C; 240 G; 250 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ccagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287706; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287706; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 7af06ef9e1797b0bb8bfa7fd735019f2. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPS1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPS1" FT /protein_id="ACT82621.1" FT /translation="SEQNRAISPPRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISFPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNSDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPS2" FT /protein_id="ACT82622.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 240 G; 253 T; 0 other; attcagagca gaacagagcc atcagccccc ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agttttccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaattcagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287707; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287707; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-21 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-21" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPS3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPS3" FT /protein_id="ACT82623.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPS4" FT /protein_id="ACT82624.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287708; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287708; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-20 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-20" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPS5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPS5" FT /protein_id="ACT82625.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPS6" FT /protein_id="ACT82626.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287709; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287709; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; fbc22ccdcaf951a1c8b3f59ed71509df. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPS7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPS7" FT /protein_id="ACT82627.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKDFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPS8" FT /protein_id="ACT82628.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 241 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagcgct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagattt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287710; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287710; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPS9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPS9" FT /protein_id="ACT82629.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPT0" FT /protein_id="ACT82630.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287711; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287711; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; a2caff2e778709fa0f49e2cf57ddac66. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPT1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPT1" FT /protein_id="ACT82631.1" FT /translation="SEQNRAISPTRGEHQVWGGGNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISFPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPT2" FT /protein_id="ACT82632.1" FT /translation="IQSRTEPSAPPEESIRFGEEATTPSQKQEPMDKELYPPLASLKSL FT FGKDPLSQ" XX SQ Sequence 1114 BP; 423 A; 197 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 gcaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caaagacccc ttgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agttttccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287712; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287712; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPT3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPT3" FT /protein_id="ACT82633.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPT4" FT /protein_id="ACT82634.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287713; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287713; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; dab7b85b0bd175609a88b716f3ea927b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPT5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPT5" FT /protein_id="ACT82635.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPT6" FT /protein_id="ACT82636.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287714; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287714; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 089840322ece1eb58ebdfd128cde0809. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPT7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPT7" FT /protein_id="ACT82637.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISFPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKRNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPT8" FT /protein_id="ACT82638.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agttttccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaacg aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287715; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287715; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 21e9f4ca11ccbb50715fe4611a5e2296. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPT9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPT9" FT /protein_id="ACT82639.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPU0" FT /protein_id="ACT82640.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 241 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacaatatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacgcca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287716; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287716; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 897eaf9c9fb6887bdcec15f433904bb6. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPU1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPU1" FT /protein_id="ACT82641.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPU2" FT /protein_id="ACT82642.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 198 C; 238 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287717; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287717; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 3e7e000eeebda8d1e9f351709e99c79b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPU3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPU3" FT /protein_id="ACT82643.1" FT /translation="SEQNRAISPSRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSFPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPU4" FT /protein_id="ACT82644.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccct ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agttttccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287718; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287718; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-10 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 104733fefce8533985d352fa362c016a. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPU5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPU5" FT /protein_id="ACT82645.1" FT /translation="SEQNRAISPTRREHQVWGGDNNSLSETGTDGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPU6" FT /protein_id="ACT82646.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaagaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggaaccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacgcca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287719; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287719; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_012201p-2 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5662a7409821ba2b9b6bff2c32a18612. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_012201p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="22-Jan-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPU7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPU7" FT /protein_id="ACT82647.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDREFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPU8" FT /protein_id="ACT82648.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 atagagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287720; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287720; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 0faddef01bf600ad6bd90cfd43bf0b49. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPU9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPU9" FT /protein_id="ACT82649.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT KICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPV0" FT /protein_id="ACT82650.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 238 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc cataaaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287721; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287721; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 25ee00c3a297655db84055068c8cf039. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPV1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPV1" FT /protein_id="ACT82651.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKRKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPV2" FT /protein_id="ACT82652.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaggaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287722; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287722; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; e9901d2778a395358c651b07f8570928. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPV3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPV3" FT /protein_id="ACT82653.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGTDGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPINPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPV4" FT /protein_id="ACT82654.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 198 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggaaccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattaatcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggagaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacgccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagtgatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287723; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287723; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 431b65fb08738f88a5dd3abeccbfb87e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPV5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPV5" FT /protein_id="ACT82655.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQR FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPV6" FT /protein_id="ACT82656.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tattaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaacg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actaagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287724; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287724; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 91e046a9634fe02b56c11f96041d0fab. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPV7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPV7" FT /protein_id="ACT82657.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPV8" FT /protein_id="ACT82658.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcagataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa cacctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287725; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287725; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d0f76549e37b3b013fd1940af5910673. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPV9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPV9" FT /protein_id="ACT82659.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGIDGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKRKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPW0" FT /protein_id="ACT82660.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQESMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggaatcg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagacaca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaggaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287726; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287726; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801p-2 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 057e58b755e0b2ebb1c580ddb772c14e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPW1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPW1" FT /protein_id="ACT82661.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPW2" FT /protein_id="ACT82662.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtacc ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287727; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287727; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c72321476e7c46415bbc7f1695a4577a. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPW3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPW3" FT /protein_id="ACT82663.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPW4" FT /protein_id="ACT82664.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat accccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287728; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287728; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; f488ffd680da0d6167e644b90da6dad0. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPW5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPW5" FT /protein_id="ACT82665.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKRKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPW6" FT /protein_id="ACT82666.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatttgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaggaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga gctgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287729; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287729; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; fbe6d9b2b7616508c1d47e82919c345d. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPW7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPW7" FT /protein_id="ACT82667.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPW8" FT /protein_id="ACT82668.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 426 A; 197 C; 238 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287730; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287730; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 8beae37b627b37e6fe28c7eb6077136e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPW9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPW9" FT /protein_id="ACT82669.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPX0" FT /protein_id="ACT82670.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 239 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtactgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287731; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287731; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-23 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 3120888fdc97f7a875f47d19aeb2a707. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-23" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPX1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPX1" FT /protein_id="ACT82671.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPX2" FT /protein_id="ACT82672.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 238 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctattgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287732; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287732; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4447c033602d2025f6ee2554120832d1. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPX3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPX3" FT /protein_id="ACT82673.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRIIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVNFRKLNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVRSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPX4" FT /protein_id="ACT82674.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 429 A; 200 C; 234 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaata atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatttgt tgactcagct tggttgtact ttaaatttcc 420 ccattagccc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtaaatttc agaaaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaaatat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaagat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287733; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287733; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; db53a06514d3be13f74ebc8bb860cc52. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPX5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPX5" FT /protein_id="ACT82675.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTMPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPX6" FT /protein_id="ACT82676.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatgcctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actaagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287734; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287734; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-10 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 7d0490ccfecdeefb157c0ba8cce06af7. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPX7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPX7" FT /protein_id="ACT82677.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKRKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPX8" FT /protein_id="ACT82678.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 241 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatttgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaggaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaagga acctccattc ctttggatgg gtta 1114 // ID GQ287735; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287735; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-11 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5447484172ecf2fa26f444df0f7e8541. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-11" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPX9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPX9" FT /protein_id="ACT82679.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPY0" FT /protein_id="ACT82680.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 198 C; 240 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatttgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287736; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287736; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 9b57bb0ee6e1a57e7c91fc4f92ba8bfa. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPY1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPY1" FT /protein_id="ACT82681.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPY2" FT /protein_id="ACT82682.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 238 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287737; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287737; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d99992c7415649b0a0974fafbf7c21b6. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPY3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPY3" FT /protein_id="ACT82683.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKAGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPY4" FT /protein_id="ACT82684.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 200 C; 238 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacaat aaaggcaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagtcatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287738; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287738; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_080801-15 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 9116bd68b8391d70faab973077cd7f51. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_080801-15" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="08-Aug-2001" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPY5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPY5" FT /protein_id="ACT82685.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPY6" FT /protein_id="ACT82686.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 197 C; 243 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcgtt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgctataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactga 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga gctgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287739; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287739; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c2fc7b43db4f9260e8ed063956a1d1c2. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPY7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPY7" FT /protein_id="ACT82687.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPY8" FT /protein_id="ACT82688.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQGPMDKEPYPPLASLRSL FT FGNDPLSQ" XX SQ Sequence 1114 BP; 419 A; 198 C; 244 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggggccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc ttgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287740; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287740; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 057e58b755e0b2ebb1c580ddb772c14e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPY9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPY9" FT /protein_id="ACT82689.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPZ0" FT /protein_id="ACT82690.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtacc ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287741; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287741; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; e258e80fa5affd2e5cc6f8f280e0a527. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPZ1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPZ1" FT /protein_id="ACT82691.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPZ2" FT /protein_id="ACT82692.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287742; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287742; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-2 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 641e58f16e84cd41b18378d64f43c1f3. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPZ3" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPZ3" FT /protein_id="ACT82693.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPZ4" FT /protein_id="ACT82694.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 200 C; 238 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtactgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287743; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287743; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 7331abdfca23162d85622f8f2fd908bf. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPZ5" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPZ5" FT /protein_id="ACT82695.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKK FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPZ6" FT /protein_id="ACT82696.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 239 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagatacc ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagaaaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287744; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287744; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; baa52bcf6a7e8d637df4429440187b8a. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPZ7" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPZ7" FT /protein_id="ACT82697.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EPZ8" FT /protein_id="ACT82698.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 242 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287745; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287745; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 0e52a0d3519f074e0710b582134376c8. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EPZ9" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EPZ9" FT /protein_id="ACT82699.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ00" FT /protein_id="ACT82700.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 242 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287746; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287746; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 26124f17b7ce15f6fe4978569df9217c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ01" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ01" FT /protein_id="ACT82701.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ02" FT /protein_id="ACT82702.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 420 A; 200 C; 243 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287747; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287747; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_021902p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; e624e30b2d87903ac31b9a5b1cd0ec43. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_021902p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="19-Feb-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ03" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ03" FT /protein_id="ACT82703.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTIKIGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ04" FT /protein_id="ACT82704.1" FT /translation="IQSRTEPSAPPEESIRFGEETITPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 426 A; 196 C; 237 G; 255 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaataactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaagatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287748; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287748; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 54d093fb8fd216954dc67ce4adc69af1. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ05" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ05" FT /protein_id="ACT82705.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ06" FT /protein_id="ACT82706.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 427 A; 198 C; 236 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacagt aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaaatat actgcattta ccatacctag tataaacaat gagacaccgg 840 ggattagata ccagtacaat gtgctaccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctattgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287749; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287749; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-2 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d952c9a6970449578042987d794b887c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ07" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ07" FT /protein_id="ACT82707.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ08" FT /protein_id="ACT82708.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 197 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgcaataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaggacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287750; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287750; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 14a87903b51c9fc805b44ffb2d6e4cd7. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ09" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ09" FT /protein_id="ACT82709.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQITEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ10" FT /protein_id="ACT82710.1" FT /translation="IQSRTEPSAPPEESIRFGEETITPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaataactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 cggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat acagcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctcccttc ctttggatgg gtta 1114 // ID GQ287751; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287751; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ffe85bcaf9f2a0f52924a71bb45c2028. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ11" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ11" FT /protein_id="ACT82711.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ12" FT /protein_id="ACT82712.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 196 C; 240 G; 255 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagat agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtataat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga gctgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287752; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287752; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 6945953173c4f936b55a97c0948be6de. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ13" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ13" FT /protein_id="ACT82713.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQVPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ14" FT /protein_id="ACT82714.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 197 C; 241 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcaggtacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaagatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287753; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287753; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 2b555ebbab2da5ae27cdb26fe1853939. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ15" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ15" FT /protein_id="ACT82715.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ16" FT /protein_id="ACT82716.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat accccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcagtacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga gatgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287754; SV 1; linear; genomic RNA; STD; VRL; 1111 BP. XX AC GQ287754; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1111 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1111 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 80a0b4581ac43e28a4dd4fb20d73e84f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1111 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1111 FT /gene="pol" FT CDS <1..>1111 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ17" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ17" FT /protein_id="ACT82717.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNLSETGADGQGTVSSFSFPQITLW FT QRPLVTVKIGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPIE FT ICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQWP FT LTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKRT FT QDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGIR FT YQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAKV FT EELRQHLLRWGLTTPDKKHQKEPPFLWMG" FT gene <1..159 FT /gene="gag" FT CDS <1..159 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ18" FT /protein_id="ACT82718.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTSQKQEPMDKELYPPLASLRSLF FT GNDPSSQ" XX SQ Sequence 1111 BP; 425 A; 195 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaacct ctcagaaaca ggagccgatg gacaaggaac tgtatcctcc tttagcttcc 120 ctcagatcac tctttggcaa cgacccctcg tcacagtaaa gatagggggg caaataaagg 180 aagctctatt agatacagga gcagatgata cagtattaga agacataagt ttaccaggaa 240 aatggaaacc aagaatgata gggggaattg gaggttttat caaagtaaaa cagtatgatc 300 agatacccat agaaatctgt ggacataaag ctataggtac agtgttagta ggacctacac 360 ctgtcaacat aattggaaga aatctgttga ctcagcttgg ttgtacttta aatttcccca 420 ttagtcctat tgaaactgta ccagtaaagt taaagccagg aatggatggg ccaaaagtta 480 agcaatggcc attgacagca gaaaaaataa aagcattaac agaaatttgt acagaaatgg 540 aaaaggaagg aaaaatttca aaaattgggc ctgaaaatcc atacaatact ccagtatttg 600 ccataaagaa aaaagacagt actaaatgga gaaaattagt agatttcaga gaacttaata 660 agagaactca agatttctgg gaagttcaat taggaatacc acatcccgca gggttaaaaa 720 agaaaaaatc agtaacagta ctagatgtgg gtgatgcata tttttcagtt cccttagata 780 aagaattcag aaagtatact gcatttacca tacctagtat aaacaatgag acaccaggga 840 ttagatacca gtacaatgtg ctgccacagg gatggaaagg atcaccagca atattccaaa 900 gtagcatgac aaaaatccta gagcctttta gaaaacaaaa tccagaccta gttatctatc 960 aatacatgga tgatttgtat gtaggatctg acttagaaat agggcagcat agagcaaaag 1020 tagaggaact gagacaacat ctgttgaggt gggggttgac cacaccagac aaaaaacatc 1080 agaaagaacc tccattcctt tggatgggtt a 1111 // ID GQ287755; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287755; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-11 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4d50a5b9c203d36e5b78a4e6b8a1ad87. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-11" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ19" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ19" FT /protein_id="ACT82719.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ20" FT /protein_id="ACT82720.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 200 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287756; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287756; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 1e1932f105d453578d3c9020ffbcdc88. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ21" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ21" FT /protein_id="ACT82721.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ22" FT /protein_id="ACT82722.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 199 C; 242 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287757; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287757; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-1 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ea7a4256f9ded334722e0a981e69402b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-1" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ23" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ23" FT /protein_id="ACT82723.1" FT /translation="SEQNRAISPTRREHQVWGEDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEKLRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ24" FT /protein_id="ACT82724.1" FT /translation="IQSRTEPSAPPEESIRFGEKTTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 426 A; 199 C; 236 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaagaga gcatcaggtt tggggagaag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgcggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagaa actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287758; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287758; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-14 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 2922ef026c81ef5b7618d7fa55bc6ed3. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-14" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ25" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ25" FT /protein_id="ACT82725.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGLTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ26" FT /protein_id="ACT82726.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 197 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgagact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ctatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt gaccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287759; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287759; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-15 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; f0ae6e8a836e4211c3327fbdd3f164b7. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-15" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ27" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ27" FT /protein_id="ACT82727.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTTILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ28" FT /protein_id="ACT82728.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 200 C; 240 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgagact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt gacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtactgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaacaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287760; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287760; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ebf2e462e9426d933ea29f74a815b16e. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ29" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ29" FT /protein_id="ACT82729.1" FT /translation="SEQNRAISPTRREHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ30" FT /protein_id="ACT82730.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 424 A; 199 C; 238 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaagaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgcggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287761; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287761; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-4 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 647716e24eb5cc32207ba687ced80840. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-4" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ31" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ31" FT /protein_id="ACT82731.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ32" FT /protein_id="ACT82732.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 200 C; 242 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287762; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287762; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-3 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 7f745f870fbf9c8a887f07d00a32a86c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-3" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ33" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ33" FT /protein_id="ACT82733.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKIGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAAGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLKWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ34" FT /protein_id="ACT82734.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 200 C; 237 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctgcagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat accccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga agtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287763; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287763; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302p-10 from USA nonfunctional pol protein (pol) and DE nonfunctional gag protein (gag) genes, partial sequence. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 6081f650f8a3381ff02f6392f4891139. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302p-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT misc_feature <1..>1114 FT /gene="pol" FT /note="nonfunctional pol protein due to mutation" FT gene <1..162 FT /gene="gag" FT misc_feature <1..162 FT /gene="gag" FT /note="nonfunctional gag protein due to mutation" XX SQ Sequence 1114 BP; 426 A; 199 C; 234 G; 255 T; 0 other; attcagagca gaacagagcc atcagcccca ccatatgaga acatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctgcagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca acagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat accccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagat ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287764; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287764; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-19 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4af21c88d378c022422fe446c766dddc. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-19" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ35" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ35" FT /protein_id="ACT82735.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKIGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ36" FT /protein_id="ACT82736.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 198 C; 237 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacagt aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctattgg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287765; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287765; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-21 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; bb83652ded4b7acef7f9d5e65a38c278. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-21" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ37" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ37" FT /protein_id="ACT82737.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSSSFPQITL FT WQRPLVTVKIGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ38" FT /protein_id="ACT82738.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQELMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 197 C; 240 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagctg atggacaagg aactgtatcc tcctctagct 120 tccctcaaat cactctttgg caacgacccc tcgtcacagt aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaacg gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa agggtcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actaagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctgtggatgg gtta 1114 // ID GQ287766; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287766; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-26 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4506db329917fbf72af177596b77501b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-26" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ39" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ39" FT /protein_id="ACT82739.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVTVKVGGQITEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRQQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ40" FT /protein_id="ACT82740.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 420 A; 199 C; 241 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 cggaagctct gttagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagatttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagacaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287767; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287767; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 7aa97a848fcabb085170a2c86dc18c3c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ41" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ41" FT /protein_id="ACT82741.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSLSFPQITL FT WQRPLVTVKVGGQITEALLDTGADDTVLEDMSLPGKWKPKMIGGIGGFIKVKQYDRIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ42" FT /protein_id="ACT82742.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 239 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcccttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaaggtaggg gggcaaataa 180 cggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaaaaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcggatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgcact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatataat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgattta tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg gatgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287768; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287768; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-20 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 8759a37c31cf916f33b91eeee9d7ba8f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-20" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ43" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ43" FT /protein_id="ACT82743.1" FT /translation="SEQNRAISPTRGEHKVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDLSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ44" FT /protein_id="ACT82744.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 421 A; 200 C; 242 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcataaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacctg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287769; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287769; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-27 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; f49341f796165d43e5c79090ede5b50d. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-27" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ45" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ45" FT /protein_id="ACT82745.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAKGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ46" FT /protein_id="ACT82746.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctaaagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287770; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287770; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; d40a47cda3cf29499b6c53374a18749a. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ47" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ47" FT /protein_id="ACT82747.1" FT /translation="SEQNRAISPTRREHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEREGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ48" FT /protein_id="ACT82748.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 199 C; 239 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaagaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgcggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaggga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287771; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287771; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-29 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 3855caa813d977056ff7ff98194a68fb. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-29" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ49" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ49" FT /protein_id="ACT82749.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ50" FT /protein_id="ACT82750.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 198 C; 239 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcaaatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 agaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgaggcaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287772; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287772; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-32 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 6ba04b3f291d8d662ed5f6e6b1a841a1. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-32" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ51" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ51" FT /protein_id="ACT82751.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTALVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ52" FT /protein_id="ACT82752.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 426 A; 199 C; 236 G; 253 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcaaatacc catagaaatc tgtggacata aagctatagg tacagcgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctaccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287773; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287773; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-24 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 039b35756d8322386f26800df2b2d267. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-24" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ53" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ53" FT /protein_id="ACT82753.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ54" FT /protein_id="ACT82754.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 198 C; 240 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga gctgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287774; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287774; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-23 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; fa36e5bb1cae2b1f1db766d91b437ac8. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-23" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ55" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ55" FT /protein_id="ACT82755.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSSKWRKLVDFRELNKR FT TQDFWEVQLGIPPPAGLKKKKSVTVLDVGEAYFSVPLDKEFRKYTAFTIPSINNEAPGI FT RFQFNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGFDLEIGQHRAK FT VEELRQHLLGWGFTPPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ56" FT /protein_id="ACT82756.1" FT /translation="IQSRTEPSAPPEESIRFGEEITTPPQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 415 A; 203 C; 237 G; 259 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 ataacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggagggtt tatcaaagta aaacagtatg 300 atcaaatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agttctaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accccctccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgaagc atatttttca gttcccttag 780 ataaagaatt cagaaaatat actgcattta ccatacctag tataaacaat gaggccccgg 840 ggattagatt ccagttcaat gtgcttcccc agggatggaa aggatcccca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ttgacttaga aatagggcag catagagcaa 1020 aagtagaaga actgagacaa catttattgg ggtgggggtt tacccccccc gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287775; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287775; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-33 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 50a9a9203cf79da3b232f9ed22ae1c76. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-33" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ57" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ57" FT /protein_id="ACT82757.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLRRKNSVPVLDVGEAYFSVPLDKEFRKYTAFPIPGITNEPPGI FT RSQSNVLPQGWKGSPPIFQSTMPKILDPFRNQNPDLVIYQSMDDWYVGSDLEIGQHRPK FT VEELRQLLLRWGFPPPAKNLQKDPPFLGMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ58" FT /protein_id="ACT82758.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLKSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 395 A; 223 C; 242 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcaaat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagatatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcaaatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accccatccc gcagggttaa 720 ggaggaaaaa ttcagtacca gtcctagatg tgggtgaggc atatttttca gttcccttag 780 ataaagaatt cagaaagtat acggcatttc ccatccctgg tataaccaat gagcccccag 840 ggattagatc ccagtccaat gtgctgcccc agggatggaa aggatcccca ccaatattcc 900 aaagtaccat gccaaaaatc ctagaccctt ttagaaacca aaatccagac ctagttatct 960 atcaatccat ggatgattgg tatgtaggtt ctgacttaga aatagggcag catagaccaa 1020 aagtagagga actgaggcaa cttctgttga ggtgggggtt tcccccccca gccaaaaacc 1080 ttcagaaaga ccctccattc cttgggatgg gtta 1114 // ID GQ287776; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287776; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-34 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 84fb5c096b6096b7a7ba1b0fc590612f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-34" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ59" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ59" FT /protein_id="ACT82759.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVPVLDVGDAYFSVPLDKEFRKYTAFPIPSITNEPPGI FT RSQSNVLPQGWKGSPPIFQSSMPKILDPFRNQNPDLVIYQSMDDLYVGSDLEIGQHRAK FT VEELSHHLLRWGFPPPAKNHQKDPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ60" FT /protein_id="ACT82760.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 399 A; 224 C; 237 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat cccccatccc gcagggttaa 720 agaagaaaaa atcagtacca gtcctagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcatttc ccatccctag tataaccaat gagcccccag 840 ggattagatc ccagtccaat gtgctgcccc agggatggaa aggatcccca ccaatattcc 900 aaagtagcat gccaaaaatc ctagaccctt ttagaaacca aaatccagac ctagttatct 960 atcaatccat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga attgagccac catctgttga ggtgggggtt tcccccccca gccaaaaacc 1080 atcagaaaga ccctccattc ctttggatgg gtta 1114 // ID GQ287777; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287777; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-35 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 1943d6b1b8d71084153d1563e968212b. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-35" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ61" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ61" FT /protein_id="ACT82761.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVPVLDVGDAYFSVPLDKEFRKYTAFTIPSITNEPPGI FT RSQSNVLPQGWKGSPPIFQSSMPKILDPFRKQNPDLVIYQSMDDLYVGSDLEIGQHRAK FT VEELSQLLLRWGFPPPAKNHQKDPPFLGMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ62" FT /protein_id="ACT82762.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKEPYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 403 A; 220 C; 237 G; 254 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aaccgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 tcaagcaatg gccgttgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accccatccc gcagggttaa 720 aaaagaaaaa atcagtacca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ctatccctag tataaccaat gagcccccag 840 ggattagatc ccagtccaat gtgctccccc agggatggaa aggatcccca ccaatattcc 900 aaagtagcat gccaaaaatc ctagaccctt ttagaaaaca aaatccagac ctagttatct 960 atcaatccat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga attgagccaa cttctgttga ggtgggggtt tcccccccca gccaaaaacc 1080 atcagaaaga ccctccattc cttgggatgg gtta 1114 // ID GQ287778; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287778; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; e24e11b28992899f67cd897abacdac2c. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ63" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ63" FT /protein_id="ACT82763.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSSFSFPQITL FT WQRPLVAIKVGGQIKEALLDTGADDTVLEDISLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ64" FT /protein_id="ACT82764.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 423 A; 200 C; 240 G; 251 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcgcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacata agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatc tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggagatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga gctgagacaa catctgttga ggtgggggtt taccacccca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287779; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287779; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-31 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 1ca3880310ea307d3b4da9d0bcc63f58. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-31" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ65" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ65" FT /protein_id="ACT82765.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSLSETGADGQGTVSTFSFPQITL FT WQRPLVSIKVGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGTPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLGWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ66" FT /protein_id="ACT82766.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPSQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 422 A; 199 C; 241 G; 252 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cctctcagaa acaggagccg atggacaagg aactgtatcc acctttagct 120 tccctcagat cactctttgg caacgacccc tcgtctcaat aaaggtaggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctatagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggttgtact ttaaatttcc 420 ccattagtcc tattgagact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaac accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt cagaaagtat actgcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagcctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttgg ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287780; SV 1; linear; genomic RNA; STD; VRL; 1114 BP. XX AC GQ287780; XX DT 02-AUG-2009 (Rel. 101, Created) DT 03-AUG-2009 (Rel. 101, Last updated, Version 2) XX DE HIV-1 isolate 3037_111302-25 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1114 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1114 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 922106bab18490a976a8d0691f00547f. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1114 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3037_111302-25" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="13-Nov-2002" FT /db_xref="taxon:11676" FT gene <1..>1114 FT /gene="pol" FT CDS <1..>1114 FT /codon_start=3 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ67" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ67" FT /protein_id="ACT82767.1" FT /translation="SEQNRAISPTRGEHQVWGGDNNSPSETGADGQGTVSSFSFPQITL FT WQRPLVTVKIGGQIKEALLDTGADDTVLEDMSLPGKWKPRMIGGIGGFIKVKQYDQIPI FT EICGHKATGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKLKPGMDGPKVKQW FT PLTAEKIKALTEICTEMEKEGKISKIGPENPYNTPVFAIKKKDSTKWRKLVDFRELNKR FT TQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDKEFRKYTAFTIPSINNETPGI FT RYQYNVLPQGWKGSPAIFQSSMTKILESFRKQNPDLVIYQYMDDLYVGSDLEIGQHRAK FT VEELRQHLLRWGFTTPDKKHQKEPPFLWMG" FT gene <1..162 FT /gene="gag" FT CDS <1..162 FT /codon_start=1 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ68" FT /protein_id="ACT82768.1" FT /translation="IQSRTEPSAPPEESIRFGEETTTPPQKQEPMDKELYPPLASLRSL FT FGNDPSSQ" XX SQ Sequence 1114 BP; 425 A; 199 C; 240 G; 250 T; 0 other; attcagagca gaacagagcc atcagcccca ccagaggaga gcatcaggtt tggggaggag 60 acaacaactc cccctcagaa acaggagccg atggacaagg aactgtatcc tcctttagct 120 tccctcagat cactctttgg caacgacccc tcgtcacagt aaagataggg gggcaaataa 180 aggaagctct attagataca ggagcagatg atacagtatt agaagacatg agtttaccag 240 gaaaatggaa accaagaatg atagggggaa ttggaggttt tatcaaagta aaacagtatg 300 atcagatacc catagaaatc tgtggacata aagctacagg tacagtgtta gtaggaccta 360 cacctgtcaa cataattgga agaaatctgt tgactcagct tggatgtact ttaaatttcc 420 ccattagtcc tattgaaact gtaccagtaa agttaaagcc aggaatggat gggccaaaag 480 ttaagcaatg gccattgaca gcagaaaaaa taaaagcatt aacagaaatt tgtacagaaa 540 tggaaaagga aggaaaaatt tcaaaaattg ggcctgaaaa tccatacaat actccagtat 600 ttgccataaa gaaaaaagac agtactaaat ggagaaaatt agtagatttc agagaactta 660 ataagagaac tcaagacttc tgggaagttc aattaggaat accacatccc gcagggttaa 720 aaaagaaaaa atcagtaaca gtactagatg tgggtgatgc atatttttca gttcccttag 780 ataaagaatt caggaagtat acagcattta ccatacctag tataaacaat gagacaccag 840 ggattagata ccagtacaat gtgctgccac agggatggaa aggatcacca gcaatattcc 900 aaagtagcat gacaaaaatc ctagagtctt ttagaaaaca aaatccagac ctagttatct 960 atcaatacat ggatgatttg tatgtaggat ctgacttaga aatagggcag catagagcaa 1020 aagtagagga actgagacaa catctgttga ggtgggggtt taccacacca gacaaaaaac 1080 atcagaaaga acctccattc ctttggatgg gtta 1114 // ID GQ287781; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287781; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-2 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-2" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ69" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ69" FT /protein_id="ACT55369.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ70" FT /protein_id="ACT55368.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287782; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287782; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-5 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-5" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ71" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ71" FT /protein_id="ACT55370.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ72" FT /protein_id="ACT55371.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287783; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287783; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-10 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-10" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ73" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ73" FT /protein_id="ACT55372.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ74" FT /protein_id="ACT55373.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287784; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287784; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-6 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 53b9125a6ce4b0e519391bbdaa0b14a1. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-6" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ75" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ75" FT /protein_id="ACT55374.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEEMRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ76" FT /protein_id="ACT55375.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 466 A; 222 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaaatgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287785; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287785; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-17 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-17" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ77" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ77" FT /protein_id="ACT55376.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ78" FT /protein_id="ACT55377.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287786; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287786; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-11 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-11" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ79" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ79" FT /protein_id="ACT55378.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ80" FT /protein_id="ACT55379.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287787; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287787; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-7 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; e505f93681193e78009fbec1cfd9da52. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-7" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ81" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ81" FT /protein_id="ACT55380.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEEKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ82" FT /protein_id="ACT55381.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 466 A; 225 C; 264 G; 276 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgcggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaagaaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttacgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287788; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287788; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-9 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-9" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ83" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ83" FT /protein_id="ACT55382.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ84" FT /protein_id="ACT55383.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287789; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287789; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-13 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; c88f3b6a72f6a028a134cf51f613a14f. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-13" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ85" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ85" FT /protein_id="ACT55384.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ86" FT /protein_id="ACT55385.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 466 A; 223 C; 265 G; 277 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggatatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287790; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287790; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-18 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-18" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ87" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ87" FT /protein_id="ACT55386.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ88" FT /protein_id="ACT55387.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287791; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287791; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-19 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 4f394dc7f40fbc5cd061c6bdba94e084. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-19" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ89" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ89" FT /protein_id="ACT55388.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLTGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ90" FT /protein_id="ACT55389.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 466 A; 222 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgac 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287792; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287792; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-12 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-12" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ91" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ91" FT /protein_id="ACT55390.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ92" FT /protein_id="ACT55391.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287793; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287793; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-22 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5a07f0547e07a7a55f73ece6e8eb6083. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-22" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ93" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ93" FT /protein_id="ACT55392.1" FT /translation="FFRENLAFPQGKAREFLPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ94" FT /protein_id="ACT55393.1" FT /translation="FLGKIWPSPKGRPGNFFQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 464 A; 222 C; 265 G; 280 T; 0 other; attttttagg gaaaatttgg ccttccccca agggaaggcc agggaatttc ttccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287794; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287794; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-8 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-8" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ95" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ95" FT /protein_id="ACT55394.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ96" FT /protein_id="ACT55395.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287795; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287795; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-21 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; ef38968e46adbda6ebadfa905bd70cab. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-21" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ97" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ97" FT /protein_id="ACT55396.1" FT /translation="FFRENMAFPQGKAREFPPEQARAEQTRANSPPRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQ98" FT /protein_id="ACT55397.1" FT /translation="FLGKIWPSPKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 463 A; 224 C; 266 G; 278 T; 0 other; attttttagg gaaaatatgg ccttccccca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag cccccccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagagaaaga c 1231 // ID GQ287796; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287796; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-14 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; b0219601d05b83407d1f43a93e0e76c7. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-14" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQ99" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQ99" FT /protein_id="ACT55398.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLD FT KDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTRILEPFRQQNPDIVI FT YQYMDDLYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKW FT TVQPIVLPEKD" FT gene <1..224 FT /gene="gag" FT CDS <1..224 FT /codon_start=3 FT /gene="gag" FT /product="gag protein" FT /db_xref="InterPro:IPR014817" FT /db_xref="UniProtKB/TrEMBL:C7EQA0" FT /protein_id="ACT55399.1" FT /translation="FLGKIWPSHKGRPGNFLQSRPEQSRPEPTAPPEESFRFGEETTTP FT SQKQEPIDKEKYPLASLRSLFGNDPSSQ" XX SQ Sequence 1231 BP; 465 A; 223 C; 265 G; 278 T; 0 other; attttttagg gaaaatctgg ccttcccaca agggaaggcc agggaatttc ctccagagca 60 ggccagagca gagcagacca gagccaacag ccccaccaga agagagcttc aggtttgggg 120 aggagacaac aactccttct cagaagcagg agccgataga caaggaaaag tatcctttag 180 cttccctcag atcactcttt ggcaacgacc cctcgtcaca ataaagatag gggggcaact 240 aaaggaagct ctattagata caggagcaga tgatacagta ttagaagaaa tgaatttgcc 300 agggagatgg aaaccaaaaa tgataggagg aattggaggt tttatcaaag taaaacagta 360 tgatcagata cccatagaaa tctgtggcca taaagctata ggtacagtat tagtaggacc 420 tacacctgtc aacataattg gaagaaatct gttaactcag cttggttgca ctttaaattt 480 tcccattagt cctattgaaa ctgtaccagt aagattaaag ccaggaatgg atggcccaaa 540 agttaaacaa tggccattga cagaagaaaa aataaaagca ttagtagaaa tttgtacaga 600 aatggagaag gaaggaaaaa ttacaagaat tgggcctgaa aatccataca atactccagt 660 atttgccata aagaaaaaag acagtactaa atggagaaaa ttagtagatt tcagggaact 720 taataagaga actcaagact tctgggaagt tcaattagga ataccacatc ctgcaggatt 780 aaaaaagaaa aaatcagtaa cagtactgga tgtgggtgat gcatattttt cagttccctt 840 agataaagac ttcaggaagt atactgcatt taccatacct agtataaaca atgagacacc 900 agggattaga tatcagtaca atgtgcttcc acagggatgg aaaggatcac cagcaatatt 960 ccaaagtagc atgacaagaa tcttagagcc ttttagacaa caaaatccag acatagttat 1020 ctatcaatac atggatgatt tgtatgtagg atctgactta gagatagggc agcatagaac 1080 aaaaatagag gaactgagac aacatctgtt aagatgggga tttaccacac cagacaaaaa 1140 acatcagaaa gaacctccat tcctctggat gggttatgag ctccatcctg ataaatggac 1200 agtacagcct atagtgctgc cagaaaaaga c 1231 // ID GQ287797; SV 1; linear; genomic RNA; STD; VRL; 1231 BP. XX AC GQ287797; XX DT 22-JUL-2009 (Rel. 101, Created) DT 22-JUL-2009 (Rel. 101, Last updated, Version 1) XX DE HIV-1 isolate 3041_053100p-16 from USA pol protein (pol) and gag protein DE (gag) genes, partial cds. XX KW . XX OS Human immunodeficiency virus 1 OC Viruses; Ortervirales; Retroviridae; Orthoretrovirinae; Lentivirus. XX RN [1] RP 1-1231 RX DOI; 10.1128/JVI.01960-08. RX PUBMED; 19116249. RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT "Human immunodeficiency virus type 1 population genetics and adaptation in RT newly infected individuals"; RL J. Virol. 83(6):2715-2727(2009). XX RN [2] RP 1-1231 RA Kearney M., Maldarelli F., Shao W., Margolick J.B., Daar E.S., RA Mellors J.W., Rao V., Coffin J.M., Palmer S.; RT ; RL Submitted (17-JUN-2009) to the INSDC. RL HIV Drug Resistance Program, National Cancer Institute, PO Box B, RL Frederick, MD 21702, USA XX DR MD5; 5c3880c8efde3b201eca6c73c668facf. DR RFAM; RF00480; HIV_FE. DR RFAM; RF01418; HIV_POL-1_SL. XX FH Key Location/Qualifiers FH FT source 1..1231 FT /organism="Human immunodeficiency virus 1" FT /host="Homo sapiens" FT /isolate="3041_053100p-16" FT /mol_type="genomic RNA" FT /country="USA" FT /collection_date="31-May-2000" FT /db_xref="taxon:11676" FT gene <1..>1231 FT /gene="pol" FT CDS <1..>1231 FT /codon_start=2 FT /gene="pol" FT /product="pol protein" FT /db_xref="GOA:C7EQA1" FT /db_xref="InterPro:IPR000477" FT /db_xref="InterPro:IPR001969" FT /db_xref="InterPro:IPR001995" FT /db_xref="InterPro:IPR018061" FT /db_xref="InterPro:IPR021109" FT /db_xref="InterPro:IPR034170" FT /db_xref="UniProtKB/TrEMBL:C7EQA1" FT /protein_id="ACT55400.1" FT /translation="FFRENLAFPQGKAREFPPEQARAEQTRANSPTRRELQVWGGDNNS FT FSEAGADRQGKVSFSFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEEMNLPGRWK FT PKMIGGIGGFIKVKQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPIS FT PIETVPVRLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKITRIGPENPYNTPVFA FT IKKKDSTKWRKLVDFRELNKRTQDLWEVQLGIPHPAGLKKKKSVTVLD