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LOCUS	    JF320083		    4957 bp    RNA     linear	VRL 11-MAR-2011
DEFINITION  HIV-1 isolate 502-0346_RH06 from USA pol protein (pol) gene,
	    partial cds; and vif protein (vif), vpr protein (vpr), vpu protein
	    (vpu), envelope glycoprotein (env), and nef protein (nef) genes,
	    complete cds
ACCESSION   JF320083
VERSION     JF320083.1 GI:325635117
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 4957)
            Show all sequences for reference 1
  AUTHORS   Rolland,M., Tovanabutra,S., deCamp,A.C., Frahm,N., Gilbert,P.B.,
	    Sanders-Buell,E., Heath,L., Magaret,C.A., Bose,M., Bradfield,A.,
	    O'Sullivan,A., Crossler,J., Jones,T., Nau,M., Wong,K., Zhao,H.,
	    Ragui,D.N., Sorensen,S., Stoddard,J.N., Maust,B.S., Deng,W.,
	    Hural,J., Dubey,S., Michael,N.L., Shiver,J., Corey,L., Li,F.,
	    Self,S.G., Kim,J., Buchbinder,S., Casimiro,D.R., Robertson,M.N.,
	    Duerr,A., McElrath,M.J., McCutchan,F.E. and Mullins,J.I.
  TITLE     Direct Submission
  JOURNAL   Submitted (08-FEB-2011) Microbiology, University of Washington, Box
	    358070, Seattle, WA 98195, USA
REFERENCE   2
            Show all sequences for reference 2
  AUTHORS   Rolland,M., Tovanabutra,S., deCamp,A.C., Frahm,N., Gilbert,P.B.,
	    Sanders-Buell,E., Heath,L., Magaret,C.A., Bose,M., Bradfield,A.,
	    O'Sullivan,A., Crossler,J., Jones,T., Nau,M., Wong,K., Zhao,H.,
	    Raugi,D.N., Sorensen,S., Stoddard,J.N., Maust,B.S., Deng,W.,
	    Hural,J., Dubey,S., Michael,N.L., Shiver,J., Corey,L., Li,F.,
	    Self,S.G., Kim,J., Buchbinder,S., Casimiro,D.R., Robertson,M.N.,
	    Duerr,A., McElrath,M.J., McCutchan,F.E. and Mullins,J.I.
  TITLE     Genetic impact of vaccination on breakthrough HIV-1 sequences from
	    the STEP trial.
  JOURNAL   Nat. Med.. 17(3); 366-71 (2011)
  PUBMED    21358627
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 Database at Los Alamos (www.hiv.lanl.gov).;
	    ##HIVDataBaseData-START## Patient cohort HVTN 502 Patient code
	    502-0346 Patient sex M HLA type B*4403 CW*1601 A*2402 CW*0202
	    A*0201 B*1501 Sample date May-2006 Days from last seronegative
	    sample 38 Days between evidence of infection and sampling 0 Sample
	    tissue plasma Molecule RNA Viral Load 390000 Sequence name
	    502-0346_RH06 Subtype B ##HIVDataBaseData-END##
FEATURES             Location/Qualifiers
     source	     1..4957
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="502-0346_RH06"
		     /isolation_source="plasma from male placebo recipient
		     502-0346"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="USA"
		     /collection_date="May-2006"
		     /note="subtype: B"
     gene	     <1..538
		     /gene="pol"
     CDS	     <1..538
		     /gene="pol"
		     /codon_start="2"
		     /transl_table="1"
		     /product="pol protein"
		     /protein_id="ADZ33028.1"
		     /db_xref="GI:325635118"
		     /translation="KTIHTDNGTNFTSTTVKAACWWAGVKQEFGIPYNPQSQGVVESM
		     NKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIVDIIASDIQTKE
		     LQKQITKIQNFRVYYRDSRDPLWKGPAKLLWKGEGAVVIQDNSDIKVVPRRKAKIIRD
		     YGKQMAGDDCVASRQDED"
     gene	     483..1061
		     /gene="vif"
     CDS	     483..1061
		     /gene="vif"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vif protein"
		     /protein_id="ADZ33029.1"
		     /db_xref="GI:325635119"
		     /translation="MENRWQVMIVWQVDRMRISTWKSLVKHHMHISKKAKKWIYRHHY
		     ENTHPRISSEVYIPLGDAKLVVTTYWGLHTGERDWHLGQGVSIEWRKRRYSTQVDPGL
		     ADRLIHLYYFDCFSESAIRKAIVGRIVSPRCEYQAGHNKVGSLQYLALAALTTPQKTK
		     PPLPSVAKLTEDRWNKPQKTKGHRGSHTMNGH"
     gene	     1001..1294
		     /gene="vpr"
     CDS	     1001..1294
		     /gene="vpr"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpr protein"
		     /protein_id="ADZ33030.1"
		     /db_xref="GI:325635120"
		     /translation="MEQAPEDQGPQREPYNEWTLELLEELKREAVRHFPRPWLHGLGQ
		     HIYETYGDTWAGVEAIIRILQHLLFIHFRIGCQHSRIGIIQQRRARRNGASRS"
     gene	     1506..1745
		     /gene="vpu"
     CDS	     1506..1745
		     /gene="vpu"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="ADZ33031.1"
		     /db_xref="GI:325635121"
		     /translation="MQPLQIAAIVALVVAAIIAIVVWTIVLIEYKKILRQRKIDRLID
		     RIRERAEDSGNESEGDQEELLVEMGHHAPWDVDDL"
     gene	     1669..4227
		     /gene="env"
     CDS	     1669..4227
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="ADZ33032.1"
		     /db_xref="GI:325635122"
		     /translation="MRVKGTRKNYLWRWGTMLLGMLMICSATANLWVTVYYGVPVWKE
		     ANTTLFCASDAKAVNTEKHNVWATHACVPTDPNPQEVVMGNVTENFNAWKNNMVEQMQ
		     EDMISLWDQSLKPCVKLTPLCVTLECSNLNKTANLSDNGKEELKNCSFNVTTSIRDKV
		     RKEYALFYNLDIVQIDDKNNNTNNTKYRLTHCNTSVITQACPKASFEPIPIHYCAPAG
		     FAILKCNNESFNGTGPCTNVSTVQCTHGIRPVVSTQLLLNGSLAEKEIVIRSENISDN
		     AKTIIVQLKKPVQINCTRPNNNTRKSIPIGPGKAFFATGEIIGDIRQAHCILNRTQWN
		     NTLGEIAKKLGEIFGQNKTIVFNKSSGGDPEIVMHSFNCGGEFFYCNSTPLFNSTWNA
		     NGTWNGTGNLTTGNITLTCRIKQIINMWQEVGKAMYAPPIRGLISCSSNITGLLLTRD
		     GGEGNDTNNITEVFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTKAKRRVVQREKRA
		     VGIGALFLGFLGAAGSTMGAASMTLTVQARQLLSGIVQQQNNLLRAIEAQQHLLQLTV
		     WGIKQLQARVLAVERYLKDQQLLGIWGCSGKLICTTAVPWNDSWSNKSMKDIWDNMTW
		     MQWDREITNYTKVIYSLIEESQNQQEKNEQELLALDKWDSLMNWFSITNWLWYIKIFI
		     MIVGGLVGLRIVFTVLSVVNRVRQGYSPLSFQTHLPIPREPDRPEGIEEEGGERDRDR
		     STRLVHGFLPLIWDDLRSLILFSYRRLRDLLLIAARIVELLGRRGWEILKYWWNLLQY
		     WSQELKNSAVSLLNATAIAVAEGTDRVIEAIQRILRAVLHVPRRIRQGLERILL"
     gene	     4229..4855
		     /gene="nef"
     CDS	     4229..4855
		     /gene="nef"
		     /codon_start="1"
		     /transl_table="1"
		     /product="nef protein"
		     /protein_id="ADZ33033.1"
		     /db_xref="GI:325635123"
		     /translation="MGGKWSKRRMPGWSDIRERMRRAEPAAEPAADGVGAVSRDLEKH
		     GAITSSNTAATNADCAWLEAQEEEEVGFPVRPQVPLRPMTYKGALDLSHFLREKGGLE
		     GLIYSQQRQDILDLWIYHTQGYFPDWQNYTPGPGVRYPLTFGWCFKLIPVEPEQIEEA
		     NEGENNILLHPMSQHGMDDPEKEVLMWKFDSTLAFHHRARELHPEYYK"
BASE COUNT     1736 a	 874 c	 1203 g   1144 t
ORIGIN
       1 caaaacaata catacagaca atggcaccaa tttcaccagt actacggtga aggccgcctg 
      61 ttggtgggca ggggtcaagc aggaatttgg cattccctac aatccccaaa gtcaaggagt 
     121 agtagaatct atgaataaag aattaaagaa aattatagga caggtaagag accaggctga 
     181 acatcttaag acagcagtac aaatggcagt attcatccac aattttaaga gaaaaggggg 
     241 gattggggga tacagtgcag gggaaagaat agtagacata atagcatcag acatacaaac 
     301 taaagaatta caaaaacaaa ttacaaaaat tcaaaatttt cgggtttatt acagggacag 
     361 cagagatcca ctttggaaag gaccagcaaa gctcctctgg aaaggtgaag gggcagtagt 
     421 aatacaagat aatagtgaca taaaagtagt gccaagaaga aaagcaaaga tcattaggga 
     481 ttatggaaaa cagatggcag gtgatgattg tgtggcaagt agacaggatg aggattagca 
     541 catggaaaag tttagtaaaa caccatatgc acatttcaaa gaaagctaag aaatggattt 
     601 atagacatca ctatgaaaac actcatccaa gaataagctc agaagtatac atcccactag 
     661 gggatgctaa attggtagta acaacatatt ggggtctgca cacaggagaa agagactggc 
     721 acttgggcca gggagtttcc atagaatgga ggaaaaggag atatagcaca caagtagacc 
     781 ctggcctagc agaccgacta attcatctgt attattttga ttgtttttca gaatctgcta 
     841 taagaaaagc catagtagga cgtatagtta gtcctaggtg tgaatatcaa gcaggacata 
     901 ataaggtagg atctctacaa tacttggcat tagcagcatt aacaacacca caaaagacaa 
     961 agccaccttt gcctagtgtt gcgaagttga cagaggatag atggaacaag ccccagaaga 
    1021 ccaagggcca cagagggagc catacaatga atggacacta gagctgttag aggagcttaa 
    1081 gagagaagct gttaggcatt ttcctaggcc atggcttcat ggcttaggac aacatatcta 
    1141 tgaaacttat ggggatactt gggcaggagt ggaagccata ataagaattc tgcaacacct 
    1201 gctgtttatt catttcagaa ttgggtgtca acatagcaga ataggcatta ttcaacagag 
    1261 gagagcaaga agaaatggag ccagtagatc ctagactagc gccctgggag caaccaggaa 
    1321 gtcagcctag gactgcttgt accaagtgct attgtaaaaa atgttgcctt cattgccaag 
    1381 tttgtttcat gaaaaaaggc ttaggcatct cctatggcag gaagaagcgg aggcaacgac 
    1441 gaagatctcc tcaggacagt aagaatcatc aagatcctct accaaagcag taagtagtac 
    1501 atgtaatgca acctttacaa atagcagcaa tagtagcatt agtagtagca gcaataatag 
    1561 caatagttgt gtggaccata gtactcatag aatataagaa aatattaaga caaaggaaaa 
    1621 tagataggtt aattgataga ataagagaaa gagcagagga cagtggcaat gagagtgaag 
    1681 gggaccagga agaattactt gtggagatgg ggcaccatgc tccttgggat gttgatgatc 
    1741 tgtagtgcta cagccaattt gtgggtcaca gtctattatg gggtacctgt gtggaaagaa 
    1801 gcaaatacca ctctattttg tgcatcagat gctaaggcag ttaatacaga gaagcataat 
    1861 gtttgggcca cacatgcctg tgtacccaca gaccccaacc cacaagaagt ggtaatggga 
    1921 aatgtgacag aaaattttaa tgcatggaaa aataacatgg tagaacagat gcaggaggat 
    1981 atgatcagtc tatgggatca aagcctaaag ccatgtgtaa aattaacccc actctgtgtt 
    2041 actttagagt gctctaattt gaataagacc gctaacctta gtgataatgg gaaggaagaa 
    2101 ctaaaaaact gctctttcaa tgtcaccaca agtataagag ataaggttcg gaaagaatat 
    2161 gcactttttt ataatcttga tatagtacaa atagatgata agaataataa taccaataat 
    2221 actaaatata ggttgacaca ttgtaacacc tcagtcatta cacaggcctg tccaaaggca 
    2281 tcatttgagc caattcccat acattattgt gccccagctg gttttgcgat tctaaaatgt 
    2341 aacaatgaga gtttcaatgg aacaggaccc tgtacaaatg tcagtacagt acaatgtaca 
    2401 catggaatta gaccagtagt gtcaactcaa ctgctgttaa atggcagtct agcagaaaaa 
    2461 gagatagtga ttagatctga aaatatcagt gataatgcta aaaccataat agtacagctg 
    2521 aaaaaacctg tacaaattaa ttgtacaaga cccaacaaca atacaagaaa aagtatacct 
    2581 ataggaccag ggaaagcctt ctttgcaaca ggggaaataa taggagatat aagacaagca 
    2641 cattgtatcc ttaatagaac acaatggaat aacactttag gagagatagc taaaaaatta 
    2701 ggggaaatat ttggccaaaa taaaacaata gtctttaata aatcctcagg aggggaccca 
    2761 gaaattgtta tgcacagttt taattgtgga ggggaatttt tctactgtaa ttcaacacca 
    2821 ctgtttaata gtacttggaa tgctaatggt acttggaatg gtaccggaaa tttaactact 
    2881 ggaaacatca cactcacatg tagaataaaa caaattataa acatgtggca ggaagtagga 
    2941 aaagcaatgt acgcccctcc cataagagga ctaattagtt gttcatcaaa tattacagga 
    3001 ctgttattaa caagagatgg tggtgaaggt aatgacacca acaatatcac cgaggtcttt 
    3061 agacctggag gaggagatat gagggacaat tggagaagtg aattatataa atataaagta 
    3121 gtaaaaattg agccattagg agtagcaccc accaaggcaa agagaagagt ggtgcagaga 
    3181 gaaaaaagag cagtgggaat aggagctctg ttccttgggt tcttgggagc agcaggaagc 
    3241 actatgggcg cagcgtcgat gacgctgacg gtacaagcca gacaactatt gtctggtata 
    3301 gtgcaacagc agaacaatct gctgagagct attgaagcgc aacaacatct gttgcaactc 
    3361 acagtctggg gcatcaagca gctccaggca agagtcctgg ctgtggaaag atacctaaag 
    3421 gatcaacagc tcctgggaat ttggggttgc tctggaaaac tcatttgcac cactgctgtg 
    3481 ccttggaatg atagttggag taataaatct atgaaagata tttgggataa catgacctgg 
    3541 atgcagtggg acagggaaat taccaattac acaaaagtaa tatattcctt aattgaagaa 
    3601 tcgcagaacc aacaagaaaa gaatgaacaa gaattattgg cattagataa gtgggacagt 
    3661 ctgatgaatt ggttttccat aacaaactgg ctgtggtaca taaaaatatt cataatgata 
    3721 gtaggaggtt tggtaggttt aagaatagtt tttactgtac tttctgtagt gaatagagtt 
    3781 aggcagggat attcaccatt gtcatttcag acccacctcc caatcccgag ggaacccgac 
    3841 aggcccgaag gaatcgaaga agaaggtgga gaaagagaca gagacagatc cactcgatta 
    3901 gtgcacggat tcttgccact tatctgggac gatctgagga gcctgatcct attcagctac 
    3961 cgccgcttga gagacttact cttgattgca gcgaggattg tggaactact gggacgcagg 
    4021 gggtgggaaa tcctcaaata ttggtggaat ctcctgcagt attggagtca ggaactgaag 
    4081 aatagtgctg ttagtttgct caatgccaca gctatagcag tagctgaggg gacagatagg 
    4141 gttatagaag caatacaaag aattcttaga gctgttctcc acgtacctag aagaataaga 
    4201 cagggcttgg aaagaatttt gctataagat gggtggcaag tggtcaaaac gtaggatgcc 
    4261 aggatggtct gatataagag aaagaatgag aagagctgag ccagcagcag agccagcggc 
    4321 agatggggtg ggagcagtat ctcgagacct agaaaaacat ggagcaatca caagtagcaa 
    4381 tacagcagct actaatgctg attgtgcctg gctagaagca caagaagagg aagaggtggg 
    4441 ttttccagtc agacctcagg tacctttaag accaatgact tacaagggag ctttagatct 
    4501 tagccacttt ttaagagaaa aggggggact ggaagggtta atttactccc aacaaagaca 
    4561 agatatcctt gatctgtgga tctaccacac acaaggctac ttccctgatt ggcagaacta 
    4621 cacaccaggg ccaggggtca gatatcccct gacctttgga tggtgcttca agctaatacc 
    4681 agttgaacca gagcagatag aagaggccaa tgaaggagag aacaacatct tgttacaccc 
    4741 tatgagccag catgggatgg atgacccgga gaaagaagtg ttaatgtgga agtttgacag 
    4801 caccctggca tttcatcacc gagcccgaga gctgcatccg gagtactaca aataaatgct 
    4861 gacatttaaa actgctgaca tcgagctttc tacaagggac tttccgctgg ggactttcca 
    4921 ggggaggcgt ggcctgggcg ggactgggag tggcgag
//
last modified: Tue May 31 10:56 2022


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