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LOCUS	    JX972230		    4520 bp    RNA     linear	VRL 16-MAR-2013
DEFINITION  HIV-1 isolate B.700010040.w36.283dps.3_F2 from USA vif protein
	    (vif) gene, complete cds; pol protein (pol) gene, partial cds; and
	    vpr protein (vpr), tat protein (tat), rev protein (rev), vpu
	    protein (vpu), envelope glycoprotein (env), and nef protein (nef)
	    genes, complete cds
ACCESSION   JX972230
VERSION     JX972230.1 GI:459963273
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 4520)
            Show all sequences for reference 1
  AUTHORS   Liu,M.K., Hawkins,N., Ritchie,A.J., Ganusov,V.V., Whale,V.,
	    Brackenridge,S., Li,H., Pavlicek,J.W., Cai,F., Rose-Abrahams,M.,
	    Treurnicht,F., Hraber,P., Riou,C., Gray,C., Ferrari,G., Tanner,R.,
	    Ping,L.H., Anderson,J.A., Swanstrom,R., B,C.C., Cohen,M.,
	    Karim,S.S., Haynes,B., Borrow,P., Perelson,A.S., Shaw,G.M.,
	    Hahn,B.H., Williamson,C., Korber,B.T., Gao,F., Self,S.,
	    McMichael,A. and Goonetilleke,N.
  TITLE     Vertical T cell immunodominance and epitope entropy determine HIV-1
	    escape
  JOURNAL   J. Clin. Invest. 123 (1), 380-393 (2013)
  PUBMED    23221345
REFERENCE   2 (bases 1 to 4520)
            Show all sequences for reference 2
  AUTHORS   Liu,M., Liu,M.K., Hawkins,N., Ritchie,A., Ritchie,A.J.,
	    Ganusov,V.V., Ganusov,V., Whale,V., Brackenridge,S., Li,H.,
	    Pavliceck,J., Pavlicek,J.W., Cai,F., Abrahams,M.-R., Treurnicht,F.,
	    Hraber,P., Hraber,P.T., Riou,C., Gray,C., Ferrari,G., Tanner,R.,
	    Ping,L.-H., Anderson,J.A., Anderson,J., Swanstrom,R., Cohen,M.S.,
	    Cohen,M., Abdool Karim,S., Abdool Karim,S.S., Haynes,B.,
	    Haynes,B.F., Borrow,P., Perelson,A., Shaw,G., Hahn,B., Hahn,B.H.,
	    Williamson,C., Korber,B., Korber,B.T., Gao,F., Self,S.,
	    McMichael,A., McMichael,A.J. and Goonetilleke,N.
  CONSRTM   CHAVI Core B
  TITLE     Direct Submission
  JOURNAL   Submitted (12-OCT-2012) T6 MS K710, LANL, PO Box 1663, Los Alamos,
	    NM 87545, 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 Days
	    post-screening 283 Sample timepoint w36 Patient sex M Fiebig Stage
	    x Viral Load 7580 CD4 count 994 HLA type A*3101 A*0201 B*4402
	    B*4001 Cw*0302 Cw*0501 Infection date 2006 ##HIVDataBaseData-END##
FEATURES             Location/Qualifiers
     source	     1..4520
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="B.700010040.w36.283dps.3_F2"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="USA"
		     /collection_date="2007"
		     /note="subtype: B"
     gene	     1..579
		     /gene="vif"
     CDS	     1..579
		     /gene="vif"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vif protein"
		     /protein_id="AGG91848.1"
		     /db_xref="GI:459963275"
		     /translation="MENRWQVMIVWQVDRMRIRAWKSLVKHHMYVSGRARGWFYRHHY
		     ESTHPRISSEVHIPLGEGRLVVTTYWGLHTGERNWHLGQGVSIEWRKKRYSTQVDPNL
		     ADQLIHLYYFDCFSESAIREAILGRIVSPRCDYQAGHNKVGSLQYLALTALIKPKRTK
		     PPLPSVIKLTEDRWNKPQKTKGHRGSHTMNGH"
     gene	     <1..56
		     /gene="pol"
     CDS	     <1..56
		     /gene="pol"
		     /codon_start="3"
		     /transl_table="1"
		     /product="pol protein"
		     /protein_id="AGG91847.1"
		     /db_xref="GI:459963274"
		     /translation="GKQMAGDDCVASRQDED"
     gene	     519..809
		     /gene="vpr"
     CDS	     519..809
		     /gene="vpr"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpr protein"
		     /protein_id="AGG91849.1"
		     /db_xref="GI:459963276"
		     /translation="MEQAPEDQGPQREPYNEWTLELLEELKSEAVRHFPRIWLHGLGQ
		     HIYETYGDTWTGVEALIRILQQLLFVHFRIGCQHSRIGIRQRRRARNGASRS"
     gene	     790..3398
		     /gene="tat"
     CDS	     join(790..1004,3308..3398)
		     /gene="tat"
		     /codon_start="1"
		     /transl_table="1"
		     /product="tat protein"
		     /protein_id="AGG91850.1"
		     /db_xref="GI:459963277"
		     /translation="MEPVDPRLEPWKHPGSQPRTACTNCYCKKCCFHCQVCFITKGLG
		     ISYGRKKRRPRRRAPQDSQTHQVSLSKQPTSQPRGDPTGPKESEKKVERETETDPIH"
     gene	     929..3582
		     /gene="rev"
     CDS	     join(929..1004,3308..3582)
		     /gene="rev"
		     /codon_start="1"
		     /transl_table="1"
		     /product="rev protein"
		     /protein_id="AGG91851.1"
		     /db_xref="GI:459963278"
		     /translation="MAGRSGDRDEELLKTVRLIKFLYQSNPPPSPEGTRQARRNRRRR
		     WRERQRQIRSISERILNTYLERSTEPVPLQLPPLERLTLDCNEDCGTSGTQGVGSPQI
		     LVESPTVLESGTKE"
     gene	     1021..1266
		     /gene="vpu"
     CDS	     1021..1266
		     /gene="vpu"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="AGG91852.1"
		     /db_xref="GI:459963279"
		     /translation="MNSLQISAIVALVVAGIIAIVVWSIVAIEYRKILRQRKIDRLID
		     RIRERAEDSGNESDGDQEELSALVERGHLALGDINDL"
     gene	     1184..3724
		     /gene="env"
     CDS	     1184..3724
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="AGG91853.1"
		     /db_xref="GI:459963280"
		     /translation="MRVMGIRKNYQHLWREGILLLGILMICSAADNLWVTVYYGVPVW
		     REATTTLFCASDAKAYDTEAHNVWATHACVPTDPNPQEVELKNVTENFNMWENNMVEQ
		     MHEDIISLWDQSLKPCVKLTPLCVTLNCTDLGNVTNTTNSNGKMMEKGEVKNCSFKIT
		     TDIKDRTRKEYALFYKLDVVPINDTRYRLVSCNTSVITQACPKVSFEPIPIHYCAPAG
		     FAILKCNDKQFIGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEEEVVIRAVNFSDN
		     AKTIIVQLNKSVEINCTRPHNNTRKSIPMGPGKAFYARGDITGDIRKAYCEINGTEWH
		     STLKLVVEKLREQYNKTIVFNRSSGGDPEIVMYSFNCGGEFFYCNSTKLFNSTWPWND
		     TKGSHDTNDTLMLPCRIKQIINMWQGVGKAMYAPPIEGKIRCSSNITGLLLTRDGGYE
		     SNETDEIFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTKAKRRVVQREKRAFGLGAV
		     FLGFLGAAGSTMGAASITLTVQARQLLSGIVQQQNNLLRAIEAQQHLLQLTVWGIKQL
		     QARVLAVERYLKDQQLLGIWGCSGKLICTTTVPWNTSWSNKSLEQIWDNMTWMEWERE
		     IDNYTGYIYQLIEESQNQQEKNEQELLALDKWASLWNWFDITNWLWYIKIFIMIVGGL
		     IGLRIVFTVLSIVNRVRQGYSPLSFQTHLPAQRGPDRPEGIGEEGGERDRDRSDPLVN
		     GFLTLIWSDLRSLCLFSYHRLRDLLLIVTRIVELLGRRGWEVLKYWWNLLQYWSQELK
		     NSAVSLLNATATAVAEGTDRVIEVVQRACRAILHIPRRIRQGLERALL"
     gene	     3726..4346
		     /gene="nef"
     CDS	     3726..4346
		     /gene="nef"
		     /codon_start="1"
		     /transl_table="1"
		     /product="nef protein"
		     /protein_id="AGG91854.1"
		     /db_xref="GI:459963281"
		     /translation="MGGKWSKCSVVGWPSVRERMRRAEPAAEGVGAVSRDLEKHGAIT
		     SSNTAATNADCAWLEAQEEGEVGFPVRPQVPLRPMTFKGALDLSHFLKEKGGLEGLIY
		     SQKRQDILDLWVYHTQGYFPDWQNYTPGPGTRFPLTFGWCFKLVPVDPGKVEEANKGE
		     NNCLLHPMSQHGMDDPEREVLVWRFDSNLAFRHVARELHPEYYKNC"
BASE COUNT     1526 a	 806 c	 1129 g   1059 t
ORIGIN
       1 atggaaaaca gatggcaggt gatgattgtg tggcaagtag acaggatgag gattagagca 
      61 tggaaaagtt tagtaaaaca ccatatgtat gtttcaggga gagctagggg atggttttat 
     121 agacatcact atgaaagcac tcatccaaga ataagttcag aagtacacat cccactaggg 
     181 gaaggtagat tggtagtaac aacatattgg ggtctgcata caggagaaag aaactggcat 
     241 ttgggtcaag gagtctccat agaatggaga aaaaagagat atagcacaca agtagaccct 
     301 aacctagcag accaactaat tcatctgtac tactttgact gtttttcaga atctgctata 
     361 agggaagcca tattaggacg aatagttagt cctaggtgtg actatcaagc aggacataac 
     421 aaggtaggat ctctgcagta cttggcacta acagcattaa taaaaccaaa aaggacaaag 
     481 ccacctttgc ctagtgtaat aaaactgaca gaagatagat ggaacaagcc ccagaagacc 
     541 aagggccaca gagggagcca tacaatgaat ggacactaga gcttttagag gagcttaaga 
     601 gtgaagctgt caggcacttt cctaggatat ggctccatgg tttagggcaa catatctatg 
     661 aaacttatgg agatacttgg acaggagtgg aagccttaat aagaattctg caacaactgc 
     721 tgtttgttca tttcagaatt gggtgtcaac atagcagaat aggcatcaga caacgaagga 
     781 gagcaagaaa tggagccagt agatcctaga ttagagccct ggaagcatcc aggaagtcaa 
     841 cctaggactg cttgtaccaa ttgctattgt aaaaagtgct gctttcattg ccaagtttgt 
     901 ttcataacaa aaggcttagg catctcctat ggcaggaaga agcggagacc gcgacgaaga 
     961 gctcctcaag acagtcagac tcatcaagtt tctctatcaa agcagtaagt aatatatgta 
    1021 atgaactctt tacaaatatc agcaatagta gcattagtag tagcaggaat aatagcaata 
    1081 gttgtgtggt caatagtagc catagaatat aggaaaatat taaggcaaag aaaaatagac 
    1141 aggttaattg atagaataag agaaagagca gaagacagtg gcaatgagag tgatggggat 
    1201 caggaagaat tatcagcact tgtggagaga gggcatcttg ctcttgggga tattaatgat 
    1261 ctgtagtgct gcagacaact tgtgggtcac agtctattat ggggtacctg tgtggagaga 
    1321 agcaaccact actctattct gtgcatcaga tgctaaagca tatgatacag aggcacataa 
    1381 tgtttgggcc acacacgcct gtgtacccac agaccccaac ccacaagaag tagaattaaa 
    1441 aaatgtgaca gaaaatttta atatgtggga aaataacatg gtagaacaga tgcatgagga 
    1501 tataatcagt ttatgggatc aaagcttaaa accatgtgta aaattaactc cactctgtgt 
    1561 tactttaaat tgcactgatt tagggaatgt tactaatacc actaatagta acgggaaaat 
    1621 gatggagaag ggagaagtaa aaaactgttc tttcaagatc accacagaca taaaagatag 
    1681 aacgcggaag gaatatgcac ttttttataa acttgatgta gtaccaataa atgataccag 
    1741 atataggtta gtaagctgta acacctcagt cattacacag gcctgtccaa aggtatcctt 
    1801 tgagccaatt cctatacatt attgtgcccc ggctggtttt gcgattctaa agtgtaatga 
    1861 taagcaattc attggaacag gaccatgtac aaatgtcagc acagtacaat gtacacatgg 
    1921 aattaggcca gtagtatcaa ctcaactgct gttaaatggc agtttagcag aagaagaggt 
    1981 agtaattaga gcagtcaatt tcagtgacaa tgctaaaaca ataatagtac aactgaataa 
    2041 atctgtagaa attaattgca caagacccca caacaataca agaaaaagta tacccatggg 
    2101 accagggaaa gcattttatg caagaggaga cataacagga gacataagaa aagcatattg 
    2161 tgaaattaat ggaacagaat ggcatagcac tttaaaactg gtagttgaaa aattaagaga 
    2221 acaatataat aaaacaatag tctttaatcg ctcctcagga ggggacccag aaattgtaat 
    2281 gtacagtttc aattgcggag gggaattttt ctactgtaat tcaacaaagc tgtttaatag 
    2341 tacttggcct tggaatgata ctaaagggtc acatgacact aatgacaccc tcatgctccc 
    2401 atgcagaata aaacaaatta taaacatgtg gcagggagta ggaaaagcaa tgtatgcccc 
    2461 tcccatcgaa ggaaaaatta gatgctcatc aaacattaca ggactgttat taacaagaga 
    2521 tggtggttac gagagcaatg agactgatga gatcttcaga cctggaggag gagatatgag 
    2581 ggacaattgg aggagtgaat tatataaata taaagtagta aaaattgaac cattgggagt 
    2641 agcacctacc aaggcaaaga ggagagtggt gcagagggaa aaaagagcat ttggactagg 
    2701 agctgtgttc cttgggttct tgggagcagc aggaagcact atgggcgcag catcaataac 
    2761 gctgacggta caggccagac aattattgtc tggtatagtg caacagcaga acaatttact 
    2821 gagggctatt gaggcgcaac agcatctgtt gcaactcaca gtctggggca ttaagcagct 
    2881 ccaggcaaga gtcctggctg tggaaagata cctaaaggat caacagctcc tggggatttg 
    2941 gggttgctct ggaaaactca tctgcaccac tactgtgcct tggaatacta gttggagtaa 
    3001 taaatctctg gaacagattt gggataacat gacatggatg gagtgggaaa gagaaattga 
    3061 caattataca ggctacatat accaattaat tgaagaatcg cagaaccaac aagaaaagaa 
    3121 tgaacaagaa ttattggcat tggataaatg ggcaagtttg tggaattggt ttgacataac 
    3181 aaactggctg tggtatataa aaatattcat aatgatagta ggaggcttaa taggtttaag 
    3241 aatagttttt actgtacttt ctatagtgaa tagagttagg cagggatact caccattatc 
    3301 atttcagacc cacctcccag cccagagggg acccgacagg cccgaaggaa tcggagaaga 
    3361 aggtggagag agagacagag acagatccga tccattagtg aacggattct taacacttat 
    3421 ctggagcgat ctacggagcc tgtgcctctt cagctaccac cgcttgagag acttactctt 
    3481 gattgtaacg aggattgtgg aacttctggg acgcaggggg tgggaagtcc tcaaatattg 
    3541 gtggaatctc ctacagtatt ggagtcagga actaaagaat agtgctgtta gcttgctcaa 
    3601 cgccacagcc acagcagtag ctgaggggac agatagggtt atagaagtag tacaaagagc 
    3661 ttgtagagct attctccaca tacctagaag aataagacag ggcttagaaa gggctttgct 
    3721 ataagatggg tggcaagtgg tcaaaatgta gtgtggttgg atggccttca gtaagggaaa 
    3781 gaatgagacg agctgagcca gcagcagagg gggtaggagc agtatctcga gacctggaaa 
    3841 aacatggagc aatcacaagt agcaacacag cagctaccaa tgctgattgt gcctggctag 
    3901 aagcacaaga ggagggggaa gtgggtttcc cagtcagacc tcaggtacct ttaagaccaa 
    3961 tgaccttcaa gggagctctg gatcttagcc actttttaaa agaaaagggg ggactggaag 
    4021 ggttaattta ctcccaaaaa agacaagata tccttgatct gtgggtctac cacacgcaag 
    4081 gctacttccc tgattggcag aactacacac cagggccagg gaccagattt ccactgacct 
    4141 ttggatggtg cttcaagcta gtaccagtgg atccagggaa agtagaagag gccaataaag 
    4201 gagagaacaa ctgcttgtta caccctatga gccagcatgg gatggacgac ccagagagag 
    4261 aagtgttagt gtggaggttt gacagcaacc tagcatttcg tcacgtggcc cgagagctgc 
    4321 atccggagta ctacaagaac tgctgacatc gagctttcta caagggactt tccgctgggg 
    4381 actttccagg gaggcgtgac atgggcggaa ttggggagtg gcgagcccac agatgctgca 
    4441 tataagcagc cgctttctgc ttgtactggg tctctctggt tagaccagat ctgagcctgg 
    4501 gagctctctg gctagctagg 
//
last modified: Tue May 31 10:56 2022


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