HIV 1基因組序列.docx

HIV-1 isolate 06KECst_013 from Kenya, complete genomeGenBank: FJ623485.1FASTAGraphicsPopSet Go to: LOCUS FJ623485 8715 bp RNA linear VRL 02-MAR-2010DEFINITION HIV-1 isolate 06KECst_013 from Kenya, complete genome.ACCESSION FJ623485VERSION FJ623485.1 GI:260533693KEYWORDS .SOURCE Human immunodeficiency virus 1 (HIV-1) ORGANISM Human immunodeficiency virus 1 Viruses; Retro-transcribing viruses; Retroviridae; Orthoretrovirinae; Lentivirus; Primate lentivirus group.REFERENCE 1 (bases 1 to 8715) AUTHORS Tovanabutra,S., Sanders,E.J., Graham,S.M., Mwangome,M., Peshu,N., McClelland,R.S., Muhaari,A., Crossler,J., Price,M.A., Gilmour,J., Michael,N.L. and McCutchan,F.M. TITLE Evaluation of HIV type 1 strains in men having sex with men and in female sex workers in Mombasa, Kenya JOURNAL AIDS Res. Hum. Retroviruses 26 (2), 123-131 (2010) PUBMED 20156095REFERENCE 2 (bases 1 to 8715) AUTHORS Tovanabutra,S., Sanders,E.J., Graham,S.M., Mwangome,M., Peshu,N., McClelland,S.R., Muhaari,A., Crossler,J., Price,M., Gilmour,J., Michael,N.L. and McCutchan,F.E. TITLE Direct Submission JOURNAL Submitted (12-JAN-2009) Department of Molecular Virology and Pathogenesis, US Military HIV Research Program, 1600 East Gude Drive, Rockville, MD 20850, USAFEATURES Location/Qualifiers source 1.8715 /organism=Human immunodeficiency virus 1 /mol_type=genomic RNA /isolate=06KECst_013 /isolation_source=plasma of an HIV-1 infected female /host=Homo sapiens /db_xref=taxon:11676 /country=Kenya: Mombasa /collection_date=2006 /note=subtype: A gene 2.1483 /gene=gag CDS 2.1483 /gene=gag /codon_start=1 /product=gag protein /protein_id=ACX45097.1 /db_xref=GI:260533694 /translation=MGARASVLSGGKLDAWEKIRLRPGGKKQYRLKHLVWAGRELERF ALNPGLLETAEGCQQIMEQLQSALKTGTEEFKSLYNTVATLYCVHQRIDVRDTKEALD KIEEMKNKSKQRAQQAAADTGSSSQNYPIVQNAQGQMIHQNLSPRTLNAWVKVIEEKA FSPEVIPMFTALSEGATPHDLNTMLNVVGGHQAAMQMLKDTINEEAAEWDRLHPVQAG PIPPGQMREPRGSDIAGTTSTPQEQVGWMTSNPPIPVGDIYKRWIILGLNKIVRMYSP VSILDIKQGPKEPFRDYVDRFFKCLRAEQASQDVKGWMTETLLVQNANPDCKSILRAL GAGATLEEMMTACQGVGGPSHKARVLAEAMSQAQNTKIMMQRGNFRGQNKMIKCFNCG KEGHLARNCKAPRRKGCWKCGKEGHQMKDCTERQANFLGRIWPSNKGRPGNFPQNRLE PTAPPAEMGEEMTSHPRQEQRSREPDPPLVSLKSLFGNDLLSQ gene 1285.4287 /gene=pol CDS 1285.4287 /gene=pol /codon_start=1 /product=pol protein /protein_id=ACX45098.1 /db_xref=GI:260533695 /translation=FFRENLAFQQGEARKLSPEQTGANSPTSRDGGRDDLPSEAGAEK QGTGSTFSFPQITLWQRPLVTVRIGGQLKEALLDTGADDTVLEDIDLPGKWKPKMIGG IGGFIKVKQYDQIPIEICGKKAIGTVLVGPTPVNIIGRNMLTQIGCTLNFPISPIETV PVKLKPGMDGPKVKQWPLTEEKIKALTEICTEMEKEGKISRVGPENPYNTPIFAIKKK DSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDENF RKYTAFTIPSKNNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILDPFRLKNPEIIIYQ YMDDLYVGSDLEIEQHRAKIEELRAHLLSWGFTTPDKKHQKEPPFLWMGYELHPDKWT VQPIVLPEKESWTVNDIQKLVGKLNWASQIYAGIKVRQLCKLLRGAKALTDVVTLTEE AELELAENREILKEPVHGVYYDPSKELIAEIQKQGQDQWTYQIYQEPFKNLKTGKYAR KRAAHTNDVRQLAEVVQKVVMESIVIWGKSPKFKLPIQKETWDTWWMDYWQATWIPEW EFVNTPPLVKLWYQLEKDPIVGAETFYVDGAANRETKLGKAGYVTDRGRQKVVSLTET TNQKTELHAIYLALQDSGSEVNIVTDSQYGLGIIQAQPDKSDSELVNQIIEKLIEKDK VYLSWVPAHKGIGGNEQVDKLVSSGIRKVLFLDGIDKAQEEHERYHSNWRAMASDFNL PPIVAKEIVASCDKCQLKGEAMHGQVDCSPGIWQLDCTHLEGKVILVAVHVASGYIEA EVIPAETGQETAYFILKLAGRWPVKVVHTDNGPNFTSAAVKAACWWAGVQQEFGIPYN PQSQGVVESMNKELKKIIGQVREQAEHLKTAVQMAVFIHNFKRKGGIGEYSAGERIID IIASDIQTKELQKQITKIQNFRVYYRDSRDPIWKGPAKLLWKGEGAVVIQDNSDIKVV PRRKAKIIRDYGKQMAGNDCVAGRQDED gene 4232.4810 /gene=vif CDS 4232.4810 /gene=vif /codon_start=1 /product=vif protein /protein_id=ACX45099.1 /db_xref=GI:260533696 /translation=MENRWQAMIVWQVDRMKIRTWNSLVKHHMYVSKKAKGWFYRHHY ESRHPRVSSEVHIPLGDARLVVRTYWGLQTGEKDWHLGHGVSIEWRLKRYSTQVDPDQ ADQLIHLYYFDCFSESAIRRAILGQVVSPKCEYQAGHSKVGSLQYLALKALVTPTKTK PPLPSVRILTEDRWNKPRKTRGPRESHTMNGC gene 4750.5040 /gene=vpr CDS 4750.5040 /gene=vpr /codon_start=1 /product=vpr protein /protein_id=ACX45100.1 /db_xref=GI:260533697 /translation=MEQAPENQGPQREPYNEWVLELLEELKHEAVRHFPRPWLHALGQ QIYNTYGDTWEGVEAIIRILQQLLFVHFRIGCQHSRIGIIRGRRGRNGPSRS gene 5021.7672 /gene=tat CDS join(5021.5235,7582.7672) /gene=tat /codon_start=1 /product=tat protein /protein_id=ACX45101.1 /db_xref=GI:260533698 /translation=MDPVDPNIEPWNHPGSQPTTPCNTCFCKKCSYHCQLCFLKKGLG ISYGRKKRRQRRGTPHSSKDHQNLVPKQPIPQTQGVSTGPEESTKKVESKAETDRFD gene 5160.7877 /gene=rev CDS join(5160.5235,7582.7877) /gene=rev /codon_start=1 /product=rev protein /protein_id=ACX45102.1 /db_xref=GI:260533699 /translation=MAGRSGDSDEGLLTAVRIIKILYQSNPYPKPRGSRQARKNRRRR WRARQRQIDSISERILGTFLGRPEEPVPFQLPPLERLHIDCSEDCGTSGTQQSQGPET GVGGPQVSVESPGILGSGTKN gene 5271.5516 /gene=vpu CDS 5271.5516 /gene=vpu /codon_start=1 /product=vpu protein /protein_id=ACX45103.1 /db_xref=GI:260533700 /translation=MTPLGICAIVGLIVALILAIVVWTIVGIEYKRVLKQRKINKLIE RIRERAEDSGNESEGDTEELSSLMEMGNYNLGYDNNL gene 5434.8019 /gene=env CDS 5434.8019 /gene=env /codon_start=1 /product=envelope glycoprotein /protein_id=ACX45104.1 /db_xref=GI:260533701 /translation=MRVKGIQRSCHHLWRWGIIILGMIIICSVAENLWVTVYYGVPVW KDADTTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIHLDNVTEEFNMWKNNMVEQ MHTDIISLWDQSLKPCVKLTPLCVTLNCTTANINATANSTIKEEIKNCSFSVTTELKD KKRKVYSLFYKLDIVELNENQGKSSDNSSKEYRLINCNTSAITQACPKVTFEPIPIHY CAPAGFAILKCTDKEFNGAGPCKNVSTVQCTHGIKPVVSTQLLLNGSLAEEQIRIRSE NITNNAKNIIVQLVKPVEINCTRPSNNTRTSIRIGPGQAFYATGDITGDIRQAHCNVN KSQWNTALQKVVEQLRNHFNKTIIFNESSGGDMEITTHSFNCGGEFFYCNTSGLFNST WYHNSTWNDQTDERSNDTITLQCRIKQIINMWQRVGQAIYAPPIQGTIRCESNITGLI LTRDGGEDSNTTTETFRPSGGDMKDNWRSELYKYKVVKIEPLGVAPSRARRRVVGREK RAVGIGAVFLGFLGAAGSTMGAASITLTVQARQLLSGIVQQQSNLLRAIEAQQHMLRL TVWGIKQLQARVLAVESYLKDQQLLGIWGCSGRLICTTNVPWNTSWSNKSYNEIWENM TXLQWDKEISNYTQIIYBLIEDSQNQQEKNELDLLALDKWASLWNWFDITNWLWYIKI FIIIVGGLIGLRIVFAVLAIINRVRQGYSPLSFQTHTPNPGGLDRPGRIDEEGGEQGR DRSIRLVSGFLALFWDDLRSLCLFSYHRLRDFILIAARTVELLGHSSLKGLRLGWEGL KYLWNLLVYWGREQKIRAIKLVDAIAIAVAGWTDRVIEIGQRIGRAIINIPRRIRQGA ERALL gene 8021.8635 /gene=nef CDS 8021.8635 /gene=nef /codon_start=1 /product=nef protein /protein_id=ACX45105.1 /db_xref=GI:260533702 /translation=MGGKWSKSSIVGWPEIRERMRKTPVAAPGVGAVSQDLDKHGAVT SSNVNHPSCVWLEAQEEEEVGFPVRPQVPLRPMTYKGGLDLSHFLKEKGGLDGLIWSR KRQEILDLWIYHTQGYFPDWQNYTPGPGVRYPLTFGWCFKLVPVEPEEVEKANEGENN CLLHPICQHGMDDEEKEVLKWTFDSRLALKHRAYEMHPEFYKDCORIGIN 1 gatgggtgcg agagcgtcag tattaagcgg gggaaaatta gatgcatggg agaaaattcg 61 gttaaggcca ggaggaaaga aacaatatag actaaaacat ttagtatggg caggcagaga 121 gctggaaaga tttgcactca accctggcct tttagaaaca gcagaaggat gtcaacaaat 181 aatggaacag ttacaatcag ctctcaagac aggaacagaa gaatttaaat cattatataa 241 tacagtagca accctctatt gtgtacatca aagaatagat gtaagagaca ccaaggaagc 301 tctagataaa atagaggaaa tgaaaaataa gagcaagcaa agggcacaac aggcagcagc 361 tgacacagga agcagcagcc agaattaccc tatagtgcaa aatgcacaag ggcaaatgat 421 acatcagaac ttgtcaccta ggactttaaa tgcatgggta aaagtaatag aagaaaaggc 481 ttttagccca gaagtaatac ccatgttcac agcattatca gaaggagcca ccccacacga 541 tttaaataca atgctgaatg tagtgggggg acaccaggca gctatgcaaa tgctaaaaga 601 taccatcaat gaggaagctg cagaatggga cagattacat ccagtccagg cagggcctat 661 tccaccaggc cagatgagag aaccaagggg aagtgacata gcaggaacta ctagtacccc 721 tcaagaacaa gtgggatgga tgacaagcaa cccacctatc ccagtgggag acatctataa 781 aagatggata atactgggat taaataaaat agtaagaatg tatagccctg ttagcatcct 841 ggatataaaa caagggccaa aagaaccctt cagagattat gtagataggt tctttaaatg 901 tctcagagct gagcaagctt cacaggatgt aaaaggttgg atgacagaaa cattattggt 961 ccaaaatgca aatccagatt gtaagtccat tttaagagca ttaggagcag gggctacatt 1021 agaagaaatg atgacagcat gccaaggagt gggaggaccc agccataaag caagggtttt 1081 ggctgaagca atgagtcagg cacaaaatac aaaaataatg atgcagagag gcaattttag 1141 gggccagaat aagatgatta agtgcttcaa ctgtggcaaa gaaggacacc tagccagaaa 1201 ttgcaaggca cctaggagaa agggctgttg gaaatgtggg aaggagggac accaaatgaa 1261 agactgcact gaaagacagg ctaatttttt agggagaatt tggccttcca acaaggggag 1321 gccaggaaac tttccccaga acagactgga gccaacagcc ccaccagcag agatggggga 1381 agagatgacc tcccatccga ggcaggagca gagaagcagg gaaccggatc cacctttagt 1441 ttccctcaaa tcactctttg gcaacgacct cttgtcacag taagaatagg gggacagtta 1501 aaagaagctc tgttagatac aggagcagat gatacagtat tagaagacat agatttgcca 1561 ggaaaatgga aaccaaaaat gataggggga attggaggtt tcatcaaggt aaaacagtat 1621 gatcaaatac ctatagaaat ttgtggaaaa aaggctatag gtacagtatt agtaggacct 1681 acacctgtca acataattgg aagaaacatg ttgacccaga ttggttgtac tttaaatttc 1741 ccaattagtc ctattgagac tgtaccagta aaattaaagc cagggatgga tggcccaaag 1801 gttaaacaat ggccattgac agaagaaaaa ataaaagcat taacagaaat ttgtacagaa 1861 atggaaaagg aaggaaaaat ttcaagagtt gggcctgaaa atccatacaa tactccaata 1921 tttgcgataa agaaaaaaga cagtaccaaa tggagaaagt tagtagattt tagagagctc 1981 aataaaagaa cacaagactt ttgggaagtt caattaggaa tacctcatcc agcgggccta 2041 aaaaagaaaa agtcagtaac agtactagat gtgggggatg catatttttc agttccatta 2101 gatgaaaact ttagaaagta cactgcattc accataccta gtaaaaacaa tgagacacca 2161 ggaatcagat atcagtacaa tgtgctccca cagggatgga aaggatcacc agcaatattc 2221 cagagcagta tgacaaaaat cttagatccc tttagattaa aaaatccaga aataattatc 2281 tatcaataca tggatgactt gtatgtagga tctgatttag aaatagagca gcatagagca 2341 aaaatagaag agttgagagc tcatctattg agctggggat ttactacacc agacaaaaag 2401 catcagaaag aacctccatt cctttggatg ggatatgaac tccatcctga caagtggaca 2461 gtccagccta tagtgctgcc agaaaaagaa agctggactg tcaatgatat acagaaatta 2521 gtgggaaaat taaattgggc aagtcaaatt tatgcaggaa ttaaagtaag gcaattgtgc 2581 aaactcctta ggggagccaa agcactaaca gatgtagtaa cattgactga ggaagcagaa 2641 ttagaattgg cagaaaacag ggagatttta aaagaacctg tgcatggagt ctattatgac 2701 ccatcgaaag aattaatagc agaaatacag aaacaagggc aagaccaatg gacataccaa 2761 atttatcaag aaccatttaa aaatttaaaa acaggaaagt atgcaagaaa gagggctgct 2821 cacactaatg atgtaagaca attagcagaa gtggtgcaaa aggtggtcat ggaaagcata 2881 gtaatatggg gaaaatctcc taagtttaaa ctacccatac aaaaagagac atgggataca 2941 tggtggatgg actattggca ggctacctgg attcctgaat gggaatttgt caatacccct 3001 cctctagtaa aattgtggta ccagttagag aaagacccca tagtaggagc agagactttc 3061 tatgtagatg gggcagccaa tagggagact aagctaggaa aagcagggta tgtcactgac 3121 agaggaagac aaaaggttgt ttccctaact gagacaacaa atcaaaagac tgaactacat 3181 gcaatctatc tagccttgca ggattcagga tcagaagtaa atatagtaac agactcacag 3241 tatggattag gaatcattca agcacaacca gacaagagtg actcagagtt agtcaatcaa 3301 ataatagaga agctaataga gaaggacaaa gtctacctgt catgggtacc agcacacaaa 3361 ggaattggag gaaatgaaca agtagataaa ttagtcagtt ctggaatcag aaaggtgctg 3421 tttttagatg ggatagataa ggctcaagaa gaacatgaaa gatatcacag caattggaga 3481 gcaatggcta gtgattttaa tctgccacct atagtagcaa aggaaatagt agccagctgt 3541 gataaatgtc agctaaaagg ggaagccatg catggacaag tagactgcag tccaggaata 3601 tggcaattag attgcacaca tttagaagga aaagtaattc tggtagcagt tcatgtagcc 3661 agtggctata tagaagcaga agttatccca gcagaaacag gacaagagac agcatatttt 3721 atactaaaat tagcaggaag atggccagta aaagtagtac acacagacaa tggtcccaat 3781 ttcaccagcg ctgcagttaa agcagcctgt tggtgggcag gtgtccaaca ggaatttgga 3841 attccctaca atccccaaag ccaaggagta gtggaatcta tgaataagga attaaagaaa 3901 atcataggac aggtaagaga acaagctgag caccttaaaa cagcagtaca aatggcagta 3961 ttcattcaca attttaaaag aaaagggggg attggggagt atagtgcagg ggaaagaata 4021 atagacataa tagcatcaga catacaaact aaagaattac aaaaacaaat tacaaaaatt 4081 caaaattttc gggtttatta cagggacagc agagatccaa tttggaaagg accagcaaag 4141 ctactctgga aaggtgaagg ggcagtagta atacaggaca atagtgatat aaaggtagta 4201 ccaagaagaa aagcaaagat tattagggac tatggaaaac agatggcagg caatgattgt 4261 gtggcaggta gacaggatga agattagaac atggaacagt ttagtaaaac atcacatgta 4321 tgtctcaaag aaagcaaaag gttggtttta tagacatcac tacgaaagca ggcatccaag 4381 agtaagttca gaagtacaca tcccactagg ggatgctaga ttagtggtaa gaacatattg 4441 gggtctgcag acaggggaaa aagactggca cttgggtcat ggggtctcca tagaatggag 4501 gctaaaaaga tatagcacac aagtagatcc tgaccaagca gaccaactaa ttcatctgta 4561 ttattttgac tgtttttcag aatctgctat aaggagagcc atattaggac aagtagttag 4621 ccctaagtgt gaatatcaag caggacatag caaggtagga tctctgcaat acttagcgct 4681 gaaagcatta gtaacaccaa caaaaacaaa gccacctttg cctagtgtta ggatattaac 4741 agaggataga tggaacaagc cccggaaaac caggggcccc agagagagcc atacaatgaa 4801 tgggtgttag agctattaga agagcttaag catgaagctg tcagacattt tcctaggcca 4861 tggcttcatg cattaggaca acagatctat aacacttatg gggatacttg ggagggagtt 4921 gaagctataa taagaattct gcaacagcta ctgtttgttc atttcagaat tgggtgccag 4981 catagcagaa taggcattat tcgagggaga agaggcagga atggacccag tagatcctaa 5041 catagagccc tggaaccacc caggaagtca gcctacaaca ccctgtaaca cgtgcttctg 5101 taaaaagtgt tcctatcatt gccagttgtg ctttttgaaa aaaggcttag gcatctccta 5161 tggcaggaag aagcggagac agcgacgagg gactcctcac agcagtaagg atcatcaaaa 5221 tcttgtacca aagcagtgag tattagtaaa tggtatatgt agtatatgta atgactcctt 5281 taggaatttg tgctatagta ggactgatag tagcattaat cctagcaata gttgtgtgga 5341 ctatagtagg tatagaatat aagagagtgc taaaacaaag gaaaataaac aagttaattg 5401 agagaataag agaaagagca gaagacagtg gcaatgagag tgaaggggat acagaggagt 5461 tgtcatcact tatggagatg gggaattata atcttgggta tgataataat ctgtagtgtt 5521 gcagaaaact tgtgggttac tgtctactat ggggtacctg tgtggaaaga tgcagacacc 5581 accttatttt gtgcatcaga tgctaaagct tatgagacag aaaagcataa tgtctgggct 5641 acacatgcct gtgtacccac agaccccaac ccacaagaaa tacatttgga taatgtgaca 5701 gaagagttta acatgtggaa aaataacatg gtagagcaga tgcatacaga tataatcagt 5761 ctatgggacc aaagcctaaa gccatgtgta aagttaaccc ctctctgcgt tactttaaat 5821 tgtacaactg ccaacatcaa tgccactgct aacagcacga tcaaggaaga aataaaaaac 5881 tgctctttca gtgtaaccac agagctaaaa gataagaaac ggaaggtata ttcacttttt 5941 tataaacttg atatagtaga acttaatgaa aatcaaggta agagtagtga taatagtagc 6001 aaggagtata gattaataaa ttgtaatacc tcagccatta cacaggcttg cccaaaggtg 6061 acctttgagc caattcccat acattattgt gccccagctg gttttgcgat cctaaaatgt 6121 acagataaag agttcaatgg agcagggcca tgcaagaatg tcagcacagt acaatgcaca 6181 catggaatca agccagtagt atcaactcaa ctgctgttaa atggcagtct agcagaagaa 6241 caaataagaa ttagatctga aaatatcaca aacaatgcca aaaatataat agtacaactt 6301 gtcaagcctg tagaaattaa ttgtaccaga cctagcaaca atacaagaac cagtatacgt 6361 ataggaccag gacaagcatt ctatgcaaca ggtgacataa caggggatat aagacaagca 6421 cattgtaatg tcaataaatc acaatggaat acagctttac aaaaggtagt tgaacaatta 6481 agaaaccact ttaacaaaac aataatattt aatgaatctt caggagggga tatggaaatc 6541 acaacacata gttttaattg tggaggagaa ttcttttatt gtaatacatc aggcctgttt 6601 aatagcactt ggtatcacaa tagcacttgg aatgatcaaa ctgacgagag gtcaaatgac 6661 actataactc tccaatgcag aataaagcaa attataaata tgtggcagag agtaggacaa 6721 gcaatatatg cccctcctat ccaaggaaca ataaggtgtg aatcaaacat tacaggacta 6781 atattaacaa gagatggtgg ggaggatagc aatacaacaa ctgaaacctt c