View NCBI entry Download GenBank file Graphics View Download GFF3 File
LOCUS JQ957623 2541 bp RNA linear VRL 14-JUL-2012
DEFINITION HIV-1 isolate CH40d284.C9 from USA envelope glycoprotein (env)
gene, complete cds; and vpu protein (vpu), rev protein (rev), and
tat protein (tat) genes, partial cds
ACCESSION JQ957623
VERSION JQ957623.1 GI:389586932
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 2541)
Show all sequences for reference 1
AUTHORS Bar,K.J., Tsao,C.Y., Iyer,S.S., Decker,J.M., Yang,Y.,
Bonsignori,M., Chen,X., Hwang,K.K., Montefiori,D.C., Liao,H.X.,
Hraber,P., Fischer,W., Li,H., Wang,S., Sterrett,S., Keele,B.F.,
Ganusov,V.V., Perelson,A.S., Korber,B.T., Georgiev,I.,
McLellan,J.S., Pavlicek,J.W., Gao,F., Haynes,B.F., Hahn,B.H.,
Kwong,P.D. and Shaw,G.M.
TITLE Early Low-Titer Neutralizing Antibodies Impede HIV-1 Replication
and Select for Virus Escape
JOURNAL PLoS Pathog. 8 (5), E1002721 (2012)
PUBMED 22693447
REFERENCE 2 (bases 1 to 2541)
Show all sequences for reference 2
AUTHORS Bar,K.J., Tsao,C.-y., Iyer,S.S., Decker,J.M., Yang,Y.,
Bonsignori,M., Chen,X., Hwang,K.-K., Montefiori,D.C., Liao,H.-X.,
Hraber,P., Fischer,W., Li,H., Wang,S., Sterrett,S., Keele,B.F.,
Ganusov,V.V., Perelson,A.S., Korber,B.T., Georgiev,I.,
McLellan,J.S., Pavlicek,J.W., Gao,F., Haynes,B.F., Hahn,B.H.,
Kwong,P.D. and Shaw,G.M.
TITLE Direct Submission
JOURNAL Submitted (19-APR-2012) Department of Medicine, University of
Pennsylvania, 3610 Hamilton Walk, Philadelphia, PA 19104, USA
COMMENT Annotation information was provided by the author. Some of the
information does not have GenBank feature identifiers and is being
provided in the comment section. Information in this section is
searchable in HIV-1 Database at Los Alamos (hiv.lanl.gov).;
##HIVDataBaseData-START## patient code 700010040 patient sex M
Sample city North Carolina HLA type A*3101 A*0201 B*4402 B*4001
Cw*0302 Cw*0501 Risk factor sex with male ##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..2541
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="CH40d284.C9"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="USA"
/collection_date="20-Apr-2007"
/note="subtype: B"
gene 1..2541
/gene="env"
CDS 1..2541
/gene="env"
/codon_start="1"
/transl_table="1"
/product="envelope glycoprotein"
/protein_id="AFK88005.1"
/db_xref="GI:389586936"
/translation="MRVMGIRKNYQHLWREGILLLGILMICSAADNLWVTVYYGVPVW
REATTTLFCASDAKAYDTEAHNVWATHACVPTDPNPQEVELKNVTENFNMWENNMVEQ
MHEDIISLWDQSLKPCVKLTPLCVTLNCTDLGNVTNTTNSKGEMMEKGEVKNCSFKIT
TDIKDRTRKEYALFYKLDVVPINDTRYRLVSCNTSVITQACPKVSFEPIPIHYCAPAG
FAILKCNDKQFIGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEVVIRSVNFSDN
AKTIIVQLNKSVEITCTRPHNNTRKSIPMGPGKAFYARGDIIGDIRKAYCKINGTEWH
STLKLVVEKLREQYNKTIVFNRSSGGDPEIVMYSFNCGGEFFYCNSTKLFNSTWPWND
TKGSHDTNDTLMLPCKIKQIINMWQGVGKAMYAPPIEGQIRCSSNITGLLLTRDGGYE
SNETDEIFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTKAKRRVVQREKRAFGLGAV
FLGFLGAAGSTMGAASITLTVQARQLLSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQL
QARVLAVERYLKDQQLLGIWGCSGKLICTTTVPWNTSWSNKSLEQIWDNMTWMEWERE
IDNYTGYIYQLIEESQNQQEKNEQELLALDKWASLWNWFDITNWLWYIKIFIMIVGGL
IGLRIVFTVLSIVNRVRQGYSPLSFQTHLPAQRGPDRPEGIGEEGGERDRDRSDPLVN
GFLTLIWSDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEVLKYWWNLLQYWSQELK
NSAVSLLNATAIAVAEGTDRVIEVVQGACRAILHIPRRIRQGLERALL"
gene <1..83
/gene="vpu"
CDS <1..83
/gene="vpu"
/codon_start="3"
/transl_table="1"
/product="vpu protein"
/protein_id="AFK88004.1"
/db_xref="GI:389586935"
/translation="ESDGDQEELSALVERGHLALGDINDL"
gene <2125..2399
/gene="rev"
CDS <2125..2399
/gene="rev"
/codon_start="3"
/transl_table="1"
/product="rev protein"
/protein_id="AFK88003.1"
/db_xref="GI:389586934"
/translation="PPPSPEGTRQARRNRRRRWRERQRQIRSISERILNTYLERSTEP
VPLQLPPLERLTLDCNENCGTSGTQGVGSPQILVESPTVLESGTKE"
gene <2125..2215
/gene="tat"
CDS <2125..2215
/gene="tat"
/codon_start="2"
/transl_table="1"
/product="tat protein"
/protein_id="AFK88002.1"
/db_xref="GI:389586933"
/translation="PTSQPRGDPTGPKESEKKVERETETDPIH"
BASE COUNT 880 a 432 c 606 g 623 t
ORIGIN
1 atgagagtga tggggatcag gaagaattat cagcacttgt ggagagaggg catcttgctc
61 ttggggatat taatgatctg tagtgctgca gacaacttgt gggtcacagt ctattatggg
121 gtacctgtgt ggagagaagc aaccactact ctattttgtg catcagatgc taaagcatat
181 gatacagagg cacataatgt ttgggccaca cacgcctgtg tacccacaga ccccaaccca
241 caagaagtag aattaaaaaa tgtgacagaa aattttaata tgtgggaaaa taacatggta
301 gaacagatgc atgaggatat aatcagttta tgggatcaaa gcttaaaacc atgtgtaaaa
361 ttaactccac tctgtgttac tttaaattgc actgatttag ggaatgttac taataccact
421 aatagtaaag gggaaatgat ggagaaggga gaagtaaaaa actgttcttt caagatcacc
481 acagacataa aagatagaac gcggaaggaa tatgcacttt tttataaact tgatgtagta
541 ccaataaatg ataccagata taggttagta agctgtaaca cctcagtcat tacacaggcc
601 tgtccaaagg tatcctttga gccaattcct atacattatt gtgccccggc tggttttgcg
661 attctaaagt gtaatgataa gcaattcatt ggaacaggac catgtacaaa tgtcagcaca
721 gtacaatgta cacatggaat taggccagta gtatcaactc aactgctgtt aaatggcagt
781 ttagcagaag aagaggtagt aattagatca gtcaatttca gtgacaatgc taaaacaata
841 atagtacaac tgaataaatc tgtagaaatt acttgcacaa gaccccacaa caatacaaga
901 aaaagtatac ccatgggacc agggaaagca ttttatgcaa gaggagacat aataggagac
961 ataagaaaag catattgtaa aattaatgga acagaatggc atagcacttt aaaactggta
1021 gttgaaaaat taagagaaca atataataaa acaatagtct ttaatcgctc ctcaggaggg
1081 gacccagaaa ttgtaatgta cagtttcaat tgcggagggg aatttttcta ctgtaattca
1141 acaaagctgt ttaatagtac ttggccttgg aatgatacta aagggtcaca tgacactaat
1201 gacacactca tgctcccatg caaaataaaa caaattataa acatgtggca gggagtagga
1261 aaagcaatgt atgcccctcc catcgaagga caaattagat gctcatcaaa cattacagga
1321 ctgttattaa caagagatgg tggttacgag agcaatgaga ctgatgagat cttcagacct
1381 ggaggaggag atatgaggga caattggagg agtgaattat ataaatataa agtagtaaaa
1441 attgaaccat tgggagtagc acctaccaag gcaaagagga gagtggtgca gagggaaaaa
1501 agagcatttg gactaggagc tgtgttcctt gggttcttgg gagcagcagg aagcactatg
1561 ggcgcagcat caataacgct gacggtacag gccagacaat tattgtctgg tatagtgcaa
1621 cagcagaaca atttactgag ggctattgag gcgcaacagc atctgttgca actcacagtc
1681 tggggcatta agcagctcca ggcaagagtc ctggctgtgg aaagatacct aaaggatcaa
1741 cagctcctgg ggatttgggg ttgctctgga aaactcatct gcaccactac tgtgccttgg
1801 aatactagtt ggagtaataa atctctggaa cagatttggg ataacatgac atggatggag
1861 tgggaaagag aaattgacaa ttatacaggc tacatatacc aattaattga agaatcgcag
1921 aaccaacaag aaaagaatga acaagaatta ttggcattgg ataaatgggc aagtttgtgg
1981 aattggtttg acataacaaa ctggctgtgg tatataaaaa tattcataat gatagtagga
2041 ggcttaatag gtttaagaat agtttttact gtactttcta tagtgaatag agttaggcag
2101 ggatactcac cattatcatt tcagacccac ctcccagccc agaggggacc cgacaggccc
2161 gaaggaatcg gagaagaagg tggagagaga gacagagaca gatccgatcc attagtgaac
2221 ggattcttaa cacttatctg gagcgatcta cggagcctgt gcctcttcag ctaccaccgc
2281 ttgagagact tactcttgat tgtaacgaga attgtggaac ttctgggacg cagggggtgg
2341 gaagtcctca aatattggtg gaatctccta cagtattgga gtcaggaact aaagaatagt
2401 gctgttagct tgctcaacgc cacagccata gcagtagctg aggggacaga tagggttata
2461 gaagtagtac aaggagcttg tagagctatt ctccacatac ctagaagaat aagacagggc
2521 ttggaaaggg ctttgctata a
//
last modified: Tue May 31 10:56 2022