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LOCUS JX446708 3762 bp RNA linear VRL 12-OCT-2012
DEFINITION HIV-1 isolate AA003b06R from Thailand vpr protein (vpr) gene,
partial cds; and vpu protein (vpu), envelope glycoprotein (env),
and nef protein (nef) genes, complete cds
ACCESSION JX446708
VERSION JX446708.1 GI:407732093
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 3762)
Show all sequences for reference 1
AUTHORS Rolland,M., Edlefsen,P.T., Larsen,B.B., Tovanabutra,S.,
Sanders-Buell,E., Hertz,T., deCamp,A.C., Carrico,C., Menis,S.,
Magaret,C.A., Ahmed,H., Juraska,M., Chen,L., Konopa,P., Nariya,S.,
Stoddard,J.N., Wong,K., Zhao,H., Deng,W., Maust,B.S., Bose,M.,
Howell,S., Bates,A., Lazzaro,M., O'Sullivan,A., Lei,E.,
Bradfield,A., Ibitamuno,G., Assawadarachai,V., O'Connell,R.J.,
deSouza,M.S., Nitayaphan,S., RERKS-NGARM,S., Robb,M.L.,
McLellan,J.S., Georgiev,I., Kwong,P.D., Carlson,J.M., Michael,N.L.,
Schief,W.R., Gilbert,P.B., Mullins,J.I. and Kim,J.H.
TITLE Increased HIV-1 vaccine efficacy against viruses with genetic
signatures in Env V2.
JOURNAL Nature.. 490(7420); 417-20 (2012)
PUBMED 22960785
REFERENCE 2 (bases 1 to 3762)
Show all sequences for reference 2
AUTHORS Rolland,M., Edlefsen,P.T., Larsen,B.B., Tovanabutra,S.,
Sanders-Buell,E., Hertz,T., de Camp,A.C., Carrico,C., Menis,S.,
Magaret,C.A., Ahmed,H., Juraska,M., Chen,L., Konopa,P., Nariya,S.,
Stoddard,J.N., Wong,K., Zhao,H., Deng,W., Maust,B.S., Bose,M.,
Howell,S., Bates,A., Lazzaro,M., O'Sullivan,A., Lei,E.,
Bradfield,A., Ibitamuno,G., Assawadarachai,V., O'Connell,R.J., de
Souza,M.S., Nitayaphan,S., RERKS-NGARM,S., Robb,M.L.,
McLellan,J.S., Georgiev,I., Kwong,P.D., Carlson,J.M., Michael,N.L.,
Schief,W.R., Gilbert,P.B., Mullins,J.I. and Kim,J.H.
TITLE Direct Submission
JOURNAL Submitted (01-AUG-2012) US Military HIV Research Program, 503
Robert Grant Ave, Silver Spring, MD 20910, USA
COMMENT ##Assembly-Data-START## Sequencing Technology Sanger dideoxy
sequencing ##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..3762
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="AA003b06R"
/isolation_source="plasma AA003b"
/host="Homo sapiens; RV144 trial participant AA003"
/db_xref="taxon:11676"
/country="Thailand"
/collection_date="2006"
/note="subtype: CRF01_AE"
gene <1..60
/gene="vpr"
CDS <1..60
/gene="vpr"
/codon_start="1"
/transl_table="1"
/product="vpr protein"
/protein_id="AFU26050.1"
/db_xref="GI:407732094"
/translation="HSRIGIIPGRRGRNGASRS"
gene 276..521
/gene="vpu"
CDS 276..521
/gene="vpu"
/codon_start="1"
/transl_table="1"
/product="vpu protein"
/protein_id="AFU26051.1"
/db_xref="GI:407732095"
/translation="MTPLQISAIVGLVVALILAIVVWTIVAIEARKILRQRKIDRLVK
RIREREEDSGNESEGDTDELAKLVEMGDFNPWVGDNV"
misc_feature <360..503
/gene="vpu"
/note="Vpu protein; Region: Vpu; pfam00558"
/db_xref="CDD:109608"
gene 439..3063
/gene="env"
CDS 439..3063
/gene="env"
/codon_start="1"
/transl_table="1"
/product="envelope glycoprotein"
/protein_id="AFU26052.1"
/db_xref="GI:407732096"
/translation="MRVKETQMNWPNLWKWGTLILGLVIMCSASDNLWVTVYYGVPVW
RDADTTLFCASDAKAHETEVHNVWATHACVPTDPNPQEMRLENVTENFNMWKNNMVEQ
MQEDVISLWDQSLQPCVKLTPLCVTLNCTEANFTKVNNDTDTIKIGNITDEVRNCSFK
MTTEIIDKKQKFYALFYKLDIIQIENGNNNNSNSTSREYRLINCNTSAIKQACPKISF
DPIPIHYCTPAGYALLKCNDKNFNGTGPCNNVSSVQCTHGIKPVVSTQLLLNGSLAED
EIVIRSENLTDNAKTIIVHLNKSVEINCTRPSNNTRKSIPMGPGRAFYQTGDIIGDIR
KAYCKIDATKWNETINQVTKKLKEHFNGSITFEPHSGGDLEITTHHFNCRGEFFYCNT
SRLFNSTCLKNHNTRECNDTITTDGNIILHCRIKQIINMWQGAGQAMYAPPISGRINC
VSNITGILLTRDGGNTGTNDTSDTRKEIFRPGGGNMKDNWRSKLYKYKVVQIEPLGIA
PTRAKRRVVEREKRAVGIGAMIFGFLGAAGSTMGAASITLTVQARQLLSGIVQQQSNL
LRAIEAQQHMLQLTVWGIKQLQARVLAVERYLKDQKFLGLWGCSGKIICTTAVPWNSS
WSNKTYEEIWGNMTWIQWEREISNYTHQIYEILAESQDQQDRNEKELLELDKWASLWS
WFDITKWLWYIRIFIMIVGGLIGLRIVFAVISIVNRVRQGYSPLSFQTPTLLQRVPDR
PEGIEEGGGEPGRDRSVRLVSGFLALAWDDLRSLCLFSYHRLRDFSLIVARTVELLGH
SSLKGLRRGWEGLKYLGNLLLYWGRELKISAISLFDASAIAVAGWTDRIIEVAQRVWR
AILHIPRRIRQGLERTLL"
misc_feature 535..1968
/gene="env"
/note="Envelope glycoprotein GP120; Region: GP120;
pfam00516"
/db_xref="CDD:109567"
misc_feature 2086..2466
/gene="env"
/note="heptad repeat 1-heptad repeat 2 region (ectodomain)
of the gp41 subunit of human immunodeficiency virus
(HIV-1), and related domains; Region: HIV-1-like_HR1-HR2;
cd09909"
/db_xref="CDD:197369"
misc_feature order(2086..2145,2152..2250)
/gene="env"
/note="HR1; other site"
/db_xref="CDD:197369"
misc_feature order(2092..2094,2098..2106,2110..2127,2131..2145,2152..21
69,2173..2190,2194..2202,2206..2211,2215..2220,2227..2232,
2236..2244,2248..2274,2287..2289,2293..2295,2299..2310,233
8..2343,2350..2355,2362..2364,2371..2376,2383..2388,2392..
2397,2404..2409,2413..2418,2425..2430,2446..2451,2458..246
0)
/gene="env"
/note="homotrimer interface [polypeptide binding]; other
site"
/db_xref="CDD:197369"
misc_feature order(2338..2397,2401..2436,2440..2466)
/gene="env"
/note="HR2; other site"
/db_xref="CDD:197369"
gene 3065..3679
/gene="nef"
CDS 3065..3679
/gene="nef"
/codon_start="1"
/transl_table="1"
/product="nef protein"
/protein_id="AFU26053.1"
/db_xref="GI:407732097"
/translation="MGGKWSKRSKVEWSQVREKIKQTPPAAAGVGAVSQDLAKHGAVT
SSNMNNADCAWLEAQEDEEVGFPVRPQVPLRPMTYKGALDLSFFLKEKGGLEGLIYSR
KRQEILDLWVYHTQGYFPDWHNYTPGPGVRYPLCFGWCFKLVPLDPIEVEEANKGENN
CLLHPMSLHGIEDEEGEVLIWKFDSSLARKHIARELRPEYYKDC"
misc_feature 3068..3673
/gene="nef"
/note="Negative factor, (F-Protein) or Nef; Region:
F-protein; pfam00469"
/db_xref="CDD:109523"
BASE COUNT 1307 a 664 c 910 g 881 t
ORIGIN
1 catagcagaa taggtattat accagggaga agaggcagga atggagccag tagatcctaa
61 cctagagccc tggaatcacc cgggaagtca gcctacaact ccgtgtagca catgttactg
121 taaaaattgt tgctggcatt gtcaaatatg ctttctgaaa aaaggcttag gcatctccta
181 tggcaggaag aagcggaagc accgacgagg aactcctcac agcagtaaag atcatcaaaa
241 tcctatacca gagcagtaag taccaagtaa atgtaatgac acctttacaa attagtgcaa
301 tagtaggact ggtagtagcg ctaatcttag caatagtagt gtggactata gtagctatag
361 aagctaggaa aatactaagg caaagaaaaa tagatagatt agttaagaga ataagagaaa
421 gagaagaaga cagtggaaat gagagtgaag gagacacaga tgaattggcc aaacttgtgg
481 aaatggggga ctttaatcct tgggttggtg ataatgtgta gtgcctcaga caacttgtgg
541 gttacagttt attatggggt ccctgtgtgg agagatgcag ataccacctt attctgtgca
601 tcagatgcca aagcacatga gacagaagtg cacaatgtct gggccacaca tgcctgtgta
661 cccacagacc ccaacccaca agaaatgcgc ctggaaaatg taacagaaaa ttttaacatg
721 tggaaaaata acatggtaga gcagatgcag gaggatgtaa tcagtttatg ggatcaaagt
781 ctacagccat gtgtaaagtt aactcctctc tgtgttactt taaattgtac cgaagctaac
841 tttactaaag taaacaatga cactgacacc attaaaatag gaaatataac agatgaagta
901 agaaactgtt cttttaaaat gaccacagaa ataatagata agaagcagaa gttctatgca
961 cttttttata agcttgatat aatacaaata gagaatggga ataataacaa tagtaatagt
1021 actagtagag agtataggtt aataaattgt aatacttcag ccattaagca ggcttgtcca
1081 aagatatcct ttgatccaat tcctatacat tattgtactc cagctggtta tgcgctttta
1141 aagtgtaatg ataagaattt caatgggaca gggccatgta acaatgtcag ttcagtacaa
1201 tgcacacatg gaattaagcc agtggtatca actcaattgc tgttgaatgg cagtctagca
1261 gaagatgaga tagtaatcag atctgaaaat cttacagaca atgctaaaac cataatagta
1321 caccttaata aatctgtaga aattaattgt accagaccct ccaacaatac aagaaaaagt
1381 atacctatgg gaccaggacg agcattctat cagacaggag acataatagg agatataaga
1441 aaagcatatt gtaagattga tgcaacaaaa tggaatgaaa ctataaatca ggtaactaaa
1501 aaattaaaag agcactttaa tgggagcata acttttgaac cacactcagg aggagatcta
1561 gaaattacaa cacatcattt taattgtaga ggggaatttt tctattgcaa tacatcaaga
1621 ctgtttaata gcacttgctt aaaaaatcat aacaccaggg agtgtaatga cactatcaca
1681 acagatggca atatcatact tcactgcagg ataaagcaaa ttataaacat gtggcaggga
1741 gcaggacaag caatgtatgc tcctcccatc agtggaagaa ttaattgtgt atcaaacatt
1801 acaggaatac tattgacaag agatggtggt aatactggta caaatgatac aagtgatacc
1861 aggaaagaga tcttcagacc tggaggagga aatatgaagg acaattggag aagtaaatta
1921 tataaatata aagtagtaca aattgaacca ctaggaatag cacccaccag ggcaaagaga
1981 agagtggtgg agagagaaaa aagagcagtg ggaataggag ctatgatctt tgggttctta
2041 ggagcagccg gaagcactat gggcgcagcg tcaataacgc tgacggtaca agccagacaa
2101 ttattgtctg gtatagtgca acagcaaagc aatttgctga gggctataga ggcgcagcag
2161 catatgttgc aactcacagt ctggggcatt aaacagctcc aggcaagagt cctggctgtg
2221 gaaagatacc taaaggatca aaagttccta ggcctttggg gctgctctgg aaaaatcatc
2281 tgcaccactg ctgtgccctg gaactcctct tggagtaata aaacttatga agagatttgg
2341 ggtaacatga catggataca atgggagaga gaaattagca attacacaca ccaaatatat
2401 gaaatacttg cagaatcaca agaccagcag gacagaaatg aaaaggagtt attagaattg
2461 gacaaatggg caagcctgtg gagttggttt gacataacaa aatggctgtg gtatataaga
2521 atctttataa tgatagtagg aggtttaata ggtttaagaa tagtttttgc tgtaatttct
2581 atagtaaata gagttaggca gggatactca cctttgtctt tccagacccc tacccttctc
2641 cagagggtac ccgacagacc cgaaggaatc gaagaaggag gtggagagcc aggcagagac
2701 agatccgtgc gattagtgag cggattctta gcacttgcct gggacgatct acggagcctg
2761 tgcctcttca gctaccaccg cttgagagac ttcagcttga ttgtagcgag gactgtggaa
2821 cttctgggac acagcagtct caagggactg agacgggggt gggaaggcct caaatatctg
2881 gggaaccttc tgttatactg gggtcgggag ctgaaaatta gtgctatttc tttgtttgat
2941 gcttcagcaa tagcagtagc agggtggaca gataggatta tagaagtagc acaaagagtt
3001 tggagagcca tcctccacat acccagaaga atcagacaag gcttagaaag gactttgcta
3061 taaaatgggg ggcaagtggt caaaaagaag caaagtggaa tggtctcagg tcagggaaaa
3121 aataaagcaa actcctccag cagcagcagg agtaggagca gtatctcaag atctagctaa
3181 acatggagca gtaacaagta gtaatatgaa taatgctgat tgtgcctggc tggaagcaca
3241 agaggatgag gaggtaggct ttccagtcag accacaggta cctctaagac caatgactta
3301 taagggagct cttgatctta gcttcttttt aaaagaaaag gggggactgg aagggctaat
3361 ttactccagg aaaagacaag agatccttga cttatgggtt taccatacgc aaggctactt
3421 ccctgattgg cacaactaca caccaggacc aggggtcaga tacccactgt gctttggatg
3481 gtgcttcaag ctggtaccac ttgacccaat agaagtagag gaggccaaca aaggagaaaa
3541 caactgcctg ttacacccca tgagcctgca tggaatagag gatgaagaag gagaagtgct
3601 gatatggaag tttgacagct cactagcacg aaaacacata gcccgagaac tgcgtccaga
3661 gtactataaa gactgctgac aaagaagttt ctaactggga ctttccgctg gggactttcc
3721 aggggaggtg tggccggggc ggagttgggg agtggtttac cc
//
last modified: Tue May 31 10:56 2022