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LOCUS JX960600 8368 bp RNA linear VRL 27-OCT-2012
DEFINITION HIV-1 isolate 09LNA446 from China, partial genome
ACCESSION JX960600
VERSION JX960600.1 GI:409684190
KEYWORDS .
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 8368)
Show all sequences for reference 1
AUTHORS An,M., Han,X., Xu,J., Chu,Z., Jia,M., Wu,H., Lu,L., Takebe,Y. and
Shang,H.
TITLE Reconstituting the Epidemic History of HIV Strain CRF01_AE among
Men Who Have Sex with Men (MSM) in Liaoning, Northeastern China:
Implications for the Expanding Epidemic among MSM in China.
JOURNAL J. Virol.. 86(22); 12402-6 (2012)
PUBMED 22933290
REFERENCE 2 (bases 1 to 8368)
Show all sequences for reference 2
AUTHORS An,M., Han,X., Xu,J., Chu,Z., Jia,M., Wu,H., Lu,L., Takebe,Y. and
Shang,H.
TITLE Direct Submission
JOURNAL Submitted (09-OCT-2012) Department of Laboratory Medicine, Key
Laboratory of AIDS Immunology of Ministry of Health, The First
Hospital of China Medical University, Shenyang, Liaoning 110001,
China
REFERENCE 3
Show all sequences for reference 3
AUTHORS Sanchez,A.M., Demarco,C.T., Hora,B., Keinonen,S., Chen,Y.,
Brinkley,C., Stone,M., Tobler,L., Keating,S., Schito,M.,
Busch,M.P., Gao,F. and Denny,T.N.
TITLE Development of a contemporary globally diverse HIV viral panel by
the EQAPOL program.
JOURNAL J Immunol Methods. 2014 Jul;409:117-30. doi:
10.1016/j.jim.2014.01.004. Epub 2014 Jan 19.
PUBMED 24447533
COMMENT ##Assembly-Data-START## Assembly Method Sequencher v. 4.10.1
Sequencing Technology Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..8368
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="09LNA446"
/isolation_source="plasma"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="China"
/collection_date="26-Nov-2009"
/note="genotype: CRF07_BC"
gene 1..1467
/gene="gag"
CDS 1..1467
/gene="gag"
/codon_start="1"
/transl_table="1"
/product="gag protein"
/protein_id="AFV34121.1"
/db_xref="GI:409684191"
/translation="MGARASILRGGKLDKWEKIRLRPGGKKHYMLKHLVWASRELERF
ALNPGLLETSEGCKQIMNQLQPALQTGTEELRSLFNTVATLYCVHTGIDVRDTKEALD
KIEEEQNKNQQKTQQAKEADRKVSQNYPIVQNLQGQMVHQPISARTLNAWVKVVEEKA
FSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQILKDTINEEAAEWDRLHPVHAG
PIAPGQMREPRGSDIAGTTSTLQDQIAWMTGNPPVPVGDIYKRWIILGLNKIVRMYSP
TSILDIKQGPKEPFRDYVDRFFKTLRAEQATQDVKNWMTDTLLVQNANPDCKTILRAL
GPGASIEEMMTACQGVGGPSHKAKVLAEAMSQTNSAIMMQRSNFRGSKRIVKCFNCGK
EGHIARNCRAPRKKGCWKCGKEGHQMKDCTERQANFLGKIWPSRKGRPGNFLQSRPEP
TAPPEESFRFGEEITTPSQKQEPITSLKSLFGNDPLLP"
gene <1280..4271
/gene="pol"
CDS <1280..4271
/gene="pol"
/codon_start="2"
/transl_table="1"
/product="pol protein"
/protein_id="AFV34122.1"
/db_xref="GI:409684192"
/translation="FFRENLALPQGKAREFSSEQTRANSPTRGELQVWGRDNNSISKA
GANNFPQITLWQRPLVTIKIGGQLKEALLDTGADDTVLEDMNLPGKWKPKMIGGIGGF
IKVRQYEQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPISPIETVPVKL
KPGMDGPKVKQWPLTKEKIEALTAICDEMEKEGKITKIGPENPYNTPIFAIKKKDSTK
WRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLYEDFRKYT
AFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQNPDIVIYQYMDD
LYVGSDLEIGQHRTKIEELRQHLLRWGFTTPDKKHQKEPPFLWMGYELHPDKWTVQPI
QLPVQDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGAKALTDIVPLTEEAELE
LAENREILKETVHGVYYDPSKDLIAEIQKQGQDQWSYQIYQEPFKNLKTGKYAKMRTA
HTNDVKQLTDAVQKIAMESIVIWGKTPKFRLPIQKETWETWWTDYWQATWIPEWEFVN
TPPLVKLWYQLEKDPIAGVETFYVDGAANRETKIGKAGYVTDRGRKKVVSLTETTNQK
TELHAICLALQDSGSEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQLIKKERVYLS
WVPAHKGIGGNEQVDKLVSSGIRKVLFLDGIDKAQEEHEKYHSNWRAMASDFNLPPIV
AKEIVASCDQCQLKGEAMHGQVDCSPGIWQLDCTHLEGKIILVAVHVASGYIEAEVIP
AETGQETAYFILKLAGRWPVKVIHTDNGSNFTSAAVKAACWWAGLQQEFGIPYNPQSQ
GVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIIDIIAT
DIQTKELQKQITKIQNFRVYYRDSRDPSWKGPAKLLWKGEGAVVIQDNSDIKVVPRRK
AKIIKDYGKQMAGDDCVAGRQDED"
gene 4216..4797
/gene="vif"
CDS 4216..4797
/gene="vif"
/codon_start="1"
/transl_table="1"
/product="vif protein"
/protein_id="AFV34123.1"
/db_xref="GI:409684193"
/translation="MENRWQVMIVWQVDRMKIRTWNSLVKHHMYVSRKANGWFYRHHY
ESRHPKVSSEVHIPLGEAKLVIRTYWGLQTGERDWHLGHGVSIEWRLSRYTTQIEPSL
ADQLIHLYYFDCFAESAIRKAILGHIVIPRCDYQAGHNNKVGSLQYLALTALIKPKKI
KPPLPSVKKLVEDRWNKPQKTRGRRGNLSMNGH"
gene 4737..5027
/gene="vpr"
CDS 4737..5027
/gene="vpr"
/codon_start="1"
/transl_table="1"
/product="vpr protein"
/protein_id="AFV34124.1"
/db_xref="GI:409684194"
/translation="MEQAPEDQGPQREPFNEWTLELLEELKQEAVRHFPRPWLHGLGQ
YIYETYGDTWAGVEAMIKSLQQLLFVHFRIGCQHSRIGIIRQRRARNGASRS"
gene 5008..7635
/gene="tat"
CDS join(5008..5222,7545..7635)
/gene="tat"
/codon_start="1"
/transl_table="1"
/product="tat protein"
/protein_id="AFV34125.1"
/db_xref="GI:409684195"
/translation="MEPVDPSLEPWKHPGSQPKTACTNCYCKQCCFHCQVCFIKKGLG
IFYGRKKRRPRRRAPQSSEDHQNPISKQPLSRTQGDPTGSEESKKKVESKAETDPYD"
gene 5147..7840
/gene="rev"
misc_feature 5147..7840
/gene="rev"
/note="nonfunctional rev protein due to mutation"
gene 5239..5484
/gene="vpu"
CDS 5239..5484
/gene="vpu"
/codon_start="1"
/transl_table="1"
/product="vpu protein"
/protein_id="AFV34126.1"
/db_xref="GI:409684196"
/translation="MQTLNILAIVALVVAAIIVIVVWTIVLIEYRKILRQRKIDRLID
RIRERAEDSGNESDGDQEELLASMEMGHYAPRNVDDL"
gene 5402..7982
/gene="env"
misc_feature 5402..7982
/gene="env"
/note="nonfunctional envelope glycoprotein due to
mutation"
gene 7984..>8368
/gene="nef"
CDS 7984..>8368
/gene="nef"
/codon_start="1"
/transl_table="1"
/product="nef protein"
/protein_id="AFV34127.1"
/db_xref="GI:409684197"
/translation="MGGKWSKSSIVGWPAIRERMRRTVPAADGVGAVSQDLEKYGAIT
SSNTAATNDACAWLEAQEEEEVGFPVRPQVPLRPMTYKGAFDLSFFLKEKGGLEGLIY
SKKRQEILDLWVYHTQGYFPDWQNYT"
BASE COUNT 3101 a 1418 c 1946 g 1900 t 3 other
ORIGIN
1 atgggtgcga gagcgtcaat attaagaggg ggaaaattag ataaatggga aaaaattagg
61 ttaaggccag ggggaaagaa acactatatg ctaaaacacc tagtatgggc aagcagggag
121 ctggaaagat ttgcacttaa ccctggcctt ttggagacat cagaaggctg taaacaaata
181 atgaaccagt tacaaccagc tcttcagaca ggaacagagg aacttagatc attattcaac
241 acagtagcaa ctctctattg tgtacataca gggatagatg tgcgagacac caaagaagcc
301 ttagacaaga tagaggaaga acaaaacaaa aatcagcaaa aaacacagca ggcaaaggag
361 gctgacagga aggtcagtca aaattatcct atagtgcaga atctccaagg gcaaatggta
421 catcagccca tatcagctag aactttaaat gcatgggtaa aagtggtaga agaaaaggct
481 tttagccccg aagtaatacc catgttttca gcattatcag aaggagccac cccacaagat
541 ttaaacacca tgctaaacac agtgggggga catcaggcag ccatgcaaat attaaaagac
601 accatcaatg aagaggctgc agaatgggat agattacatc cagtacatgc agggcctatt
661 gcaccaggcc aaatgagaga accaagggga agtgacatag caggaactac tagtaccctt
721 caggaccaaa tagcatggat gacgggtaac ccacctgttc cagtaggaga catctataaa
781 agatggataa ttctgggatt aaataaaata gtaagaatgt atagccctac cagcattctg
841 gatataaaac aagggccaaa ggaacccttt agagactatg tagaccggtt ctttaaaact
901 ttaagagcag aacaagctac acaagatgta aaaaattgga tgacagacac cttgttggtc
961 caaaatgcga acccagattg taagaccatt ttaagagcat taggaccagg ggcttcaata
1021 gaagaaatga tgacagcatg tcagggagtg ggaggaccta gccataaagc aaaagtgttg
1081 gctgaggcca tgagccaaac aaacagtgcc ataatgatgc agagaagcaa ttttagaggt
1141 tctaaaagaa ttgttaaatg tttcaactgt ggcaaggaag ggcacatagc cagaaattgc
1201 agggccccta ggaaaaaggg ctgttggaaa tgtggaaaag aagggcacca aatgaaagac
1261 tgtactgaaa gacaggccaa ttttttaggg aaaatctggc cctcccgcaa gggaaggcca
1321 gggaattttc ttcagagcag accagagcca acagccccac cagaggagag cttcaggttt
1381 ggggaagaga taacaactcc atctcaaaag caggagccaa taacttccct caaatcactc
1441 tttggcaacg accccttgtt accataaaga taggggggca attaaaggaa gctctattag
1501 atacaggggc agatgataca gtattagaag acatgaattt gccagggaaa tggaaaccaa
1561 aaatgatagg gggaattgga ggttttatca aagtaagaca gtatgaacag atacccatag
1621 aaatctgtgg acataaagct ataggtacag tattagtagg acctacacct gtcaacataa
1681 ttggaagaaa tctgttgact cagcttggtt gtactttaaa ttttccaatc agtcctattg
1741 aaactgtacc agtaaaacta aagccaggaa tggatggccc aaaggttaag caatggccat
1801 tgacaaaaga gaaaatagaa gcattaacag caatttgtga tgaaatggaa aaggaaggaa
1861 aaattacaaa aattgggcct gaaaatccat acaacactcc aatatttgcc ataaaaaaga
1921 aagacagtac taagtggaga aaattagtag atttcaggga actcaataaa agaactcaag
1981 atttttggga agttcaatta ggaataccac acccagcagg attaaaaaag aaaaaatcag
2041 tgacagtgct ggatgtgggg gatgcatatt tttcagttcc tttatatgaa gacttcagga
2101 aatatactgc attcaccata cctagtataa acaatgaaac accagggatt aggtatcagt
2161 acaatgtact tccacaggga tggaaaggat caccagcaat atttcaaagt agtatgacaa
2221 aaatcttaga accttttaga aaacaaaatc cagacatagt catctatcaa tacatggatg
2281 atttrtatgt aggatctgac ttagagatag ggcagcatag aacaaaaata gaggaactga
2341 gacaacattt gttgaggtgg ggatttacca caccagacaa gaaacatcag aaagaacctc
2401 catttctttg gatggggtat gaactccatc ctgacaaatg gacagtacaa cctatacagc
2461 tgccagtaca agatagctgg actgtcaatg atatacaaaa gttagtggga aaattaaact
2521 gggcaagtca gatttatcct ggaattaaag taaggcaact ttgtaaactc cttagggggg
2581 ccaaagcact aacagacata gtaccactaa ctgaagaagc agaattagaa ttggcagaaa
2641 acagggaaat tctaaaagaa acagtacatg gagtatacta tgacccctca aaagacttaa
2701 tagctgaaat acagaaacag gggcaggacc aatggtcata tcaaatttat caagaaccat
2761 tcaaaaatct aaaaacaggg aagtatgcaa aaatgaggac tgcccacact aatgatgtaa
2821 aacaattaac agacgctgtg cagaaaatag ccatggaaag catagtaata tggggaaaga
2881 ctcctaaatt tagactaccc atccaaaagg agacatggga aacatggtgg acagattatt
2941 ggcaagccac ctggattcct gaatgggaat ttgttaatac ccctccctta gtaaaattat
3001 ggtaccagct ggaaaaagac cctatagcag gagtagaaac tttctatgta gatggagcag
3061 ctaataggga gactaaaata ggaaaagcag ggtatgttac tgacagagga aggaagaaag
3121 ttgtttctct aactgaaaca acaaatcaga agactgaatt acacgcaatt tgtctagctt
3181 tgcaagattc aggatcagaa gtaaacatag taacagattc acagtatgca ttagggatca
3241 ttcaagcaca accagataag agcgaatcag agttagttaa ccaaataata gaacaattaa
3301 taaaaaagga aagagtctac ctgtcatggg taccagcaca taaaggaatt ggaggaaatg
3361 aacaagtaga taaattagta agtagtggaa tcaggaaagt actatttcta gatggaatag
3421 ataaagctca agaagagcat gaaaagtatc acagcaattg gagagcaatg gctagtgact
3481 ttaatctgcc acccatagta gcaaaagaaa tagtggctag ctgtgatcaa tgtcagctaa
3541 aaggagaagc catgcatgga caagtagact gtagtccagg gatatggcaa ttagattgca
3601 cccatctaga aggaaagatc atcctggtag cagtccatgt agccagtggc tacatagaag
3661 cagaggttat tccagcagag acaggacaag agacagcata ctttatacta aaattagcag
3721 gaagatggcc agtcaaagta atacatacag acaatggtag taatttcacc agtgctgcag
3781 ttaaggcagc ctgttggtgg gcaggtctcc aacaggaatt tggaattccc tacaatcccc
3841 aaagtcaggg agtagtagaa tccatgaata aagaattaaa gaaaattata gggcaggtaa
3901 gagatcaagc tgagcacctt aagacagcag tacaaatggc agtattcatc cacaatttta
3961 aaagaaaagg ggggattggg gggtacagtg caggggaaag aataatagac ataatagcaa
4021 cagacataca aactaaagaa ttacaaaaac aaattacaaa aattcaaaat tttcgggttt
4081 attacagaga cagcagagac cccagttgga aaggaccagc caaactactc tggaaaggtg
4141 aaggggcagt agtaatacaa gataatagtg acataaaggt agtaccaagg aggaaagcaa
4201 aaatcattaa ggactatgga aaacagatgg caggtgatga ttgtgtggca ggtagacagg
4261 atgaagatta gaacatggaa tagtttagta aaacaccata tgtatgtttc cagaaaagct
4321 aatggatggt tttatagaca tcattatgag agcagacatc caaaagtaag ttcagaagta
4381 cacatcccat taggagaagc taaattagta ataagaacat attgggggtt gcaaacagga
4441 gaaagagatt ggcatttggg acatggagtt tccatagaat ggagattgag tagatatacc
4501 acacaaatag aacctagtct ggcagaccag ctaattcatt tgtattattt tgattgtttt
4561 gcagaatctg ctataaggaa agccatatta ggacatatag ttattcctag gtgtgactat
4621 caagcaggac ataataataa ggtaggatct ctacaatact tggcactgac agcattgata
4681 aaaccaaaaa agataaagcc acctctgcct agtgttaaga aactagtaga ggatagatgg
4741 aacaagcccc agaagaccag gggccgcaga gggaaccttt caatgaatgg acactagagc
4801 ttctagagga gctcaagcag gaagctgtca gacactttcc tagaccatgg cttcatggct
4861 taggacaata catctatgaa acatatgggg atacttgggc aggggtggaa gccatgataa
4921 aatctctaca acaactgctg tttgttcatt tcagaattgg gtgtcagcat agcagaatag
4981 gcattataag acagagaaga gcaagaaatg gagccagtag atcctagttt agagccttgg
5041 aagcatccag gaagtcaacc taagactgct tgtaccaatt gctattgtaa acagtgctgc
5101 tttcattgcc aagtttgttt cataaaaaaa ggcttaggca tcttctatgg caggaagaag
5161 cgaagaccgc gacgaagagc tcctcaaagc agtgaggatc atcaaaatcc tatatcaaag
5221 cagtaagtag taaatgtaat gcaaacttta aacattttag caatagtagc cttagtagta
5281 gcagcaataa tagtaatagt tgtatggacc atagtactca tagaatatag aaaaatatta
5341 agacagagaa aaatagacag gctaattgat agaataagag aaagagcaga agacagtggc
5401 aatgagagtg acggggatca agaagaatta ttggcatcta tggagatggg gcactatgct
5461 cctcggaatg ttgatgatct gtagtgctgc aggaaacttg tgggtcacag tctattatgg
5521 ggtacctgta tggaaggagg caaccacaac tttattctgt gcatcagatg ctaaagcata
5581 tgatacagag gtacataatg tttgggctac acatgcctgt gtacccacag accccaaccc
5641 acaagaaatg gtcttggaaa atgtaacaga aaactttaac atgtggaaaa atgaaatggt
5701 aaatcagatg catgaagatg taatcagttt atgggatcaa agcctaaagc catgtgtaaa
5761 gttaacccca ctctgtgtca ctttaaactg tacaaatgtt aacaataata gtagcagtaa
5821 tagcagtaat agtagtagta atagtaccct tgagaacata caggaaatga aaaattgctc
5881 tttcaataca accacaatat taaaagataa gaagcagaaa gtgtatgcac ttttttatag
5941 acttgatata gtacaactta agaactctag tgagtataga ttaataaatt gtaatacctc
6001 agccataaca caagcctgtc caaaggtctc gtttgatcca attcctatac actattgcac
6061 tcctgctggt tatgcaattc ttaagtgtaa tgataagagg ttcaatggga caggaccatg
6121 ccataatgtt agctcagtac aatgtacaca tgggattaag ccagtggtat caactcaact
6181 actgttaaat ggtagcctag cagaaaaaga aataatagtt agatctgaaa atctgacaaa
6241 caatgtcaaa acaataatag tacatcttaa taaatctgta gaaattgtat gtacaagacc
6301 tggcaataat acacgaaaag gtataaggat aggaccagga caaacatttt atgcaacagg
6361 agacataata ggagacataa gacaagcaca ttgtaacatt agtaaaagag attgggagaa
6421 aactttacag aatgtaagta aaaaattagc agaaacactt ccaaaataaa acaatacaat
6481 ttgcatcatc ctcaggaggg gacctagaaa ttacaacaca tagctttaat tgtagagggg
6541 aatttttcta ttgtaataca tcaggcctgt ttaatagtac atacatgcat aatgatacat
6601 ttaatgatac agaaagtaat tcgaccatca caatcccatg cagaataaag caaattataa
6661 atatatggca tgaggtggga cgagcaatgt atgctcctcc cattgcagga aacataacat
6721 gtaagtcaaa tatcacagga ctactattag tacgtgatgg aggaggaacg tcaaataaca
6781 tgacagagat attcaggcct ggaggaggag atatgagaga taattggaga agtgaattat
6841 ataaatataa agtggtagaa attaagccat tgggagtagc acccactgaa gcaaaaagga
6901 gagtggtgga gagagaaaaa agagcagtgg gaataggagc tgtgttcctt gggttcttgg
6961 gagtagcagg aagcactatg ggcgcggcgt cagtgacgct gacggtacag gccagacaat
7021 tgctgtctgg tatagtgcaa cagcaaaaca atttgctgag ggctatagag gcgcaacagc
7081 atatgttgca actcacggtc tggggcatta aacagctcca aacaagagtc ctagctatag
7141 aaagatacct aaaggatcaa cagctcctag ggatttgggg ctgctctgga aaactcatct
7201 gcaccactgc tgtaccttgg aactccagtt ggagtaacaa atctcaaaca gagatttgga
7261 ataacatgac ctggatgcaa tgggataaag aaattagcaa ttacacagac accatataca
7321 ggttgcttga agtctcgcaa aaccagcagg aaaggaatga gaaagatcta ttagcattgg
7381 acagttggaa aaatctatgg aattggtttg acwtaacaaa ttggctgtgk tatataaaaa
7441 tatttataat gatagtagga ggcttgatag gtttaagaat aatttttgct gtgctctcta
7501 tagtgaatag agttaggcag ggatactcac ctttgtcgtt gcagaccctt atcccgaacc
7561 cagggggacc cgacaggctc ggaagaatcg aagaagaagg tggagagcaa ggcagagaca
7621 gatccgtacg attagtgacc ggattcttag cgcttgcctg ggacgatctg cggaacctgt
7681 gcctcttcag ctgccaccgc ttgagagact ttgtattagt gacagcgaga gtggtggaac
7741 ttctgggacg caacagcctc aggggactac agagggggtg ggaagccctt aaatatctgg
7801 gaagtcttgt gcagtactgg gggcaggagc taaaaaagag tactattggt ctgtttgata
7861 ccatagcaat agcagtagct gaaggaacag atagggttat agaagtagga caaagacttt
7921 gtagagctat ctacaacata cctagaagaa taagacaggg aattgaaata gttttgcaat
7981 aaaatggggg gcaagtggtc gaaaagcagc atagttggct ggcctgctat aagggaaaga
8041 atgagacgaa ctgtgccagc agcagatggg gtgggagcag tatctcaaga cctggaaaaa
8101 tatggagcga tcacgagtag caatacagcg gctactaatg atgcttgtgc atggttagaa
8161 gcacaagagg aggaggaggt gggttttcca gtcagacctc aggtaccttt aagaccaatg
8221 acttataagg gagcttttga tcttagcttc tttttaaaag aaaagggggg actggaaggg
8281 ttaatttact ctaagaaaag gcaagagatc cttgatttgt gggtctatca cacacaaggc
8341 tacttccctg attggcaaaa ctacacac
//
last modified: Tue May 31 10:56 2022