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LOCUS	    JF320007		    4930 bp    RNA     linear	VRL 11-MAR-2011
DEFINITION  HIV-1 isolate 502-1055_RH04 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   JF320007
VERSION     JF320007.1 GI:325634549
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 4930)
            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
	    502-1055 Patient sex M HLA type B*4011 CW*0702 A*3101 CW*0304
	    A*2901 B*0702 Sample date Jan-2006 Days from last seronegative
	    sample 28 Days between evidence of infection and sampling 0 Sample
	    tissue plasma Molecule RNA Viral Load 67000 Sequence name
	    502-1055_RH04 Subtype B ##HIVDataBaseData-END##
FEATURES             Location/Qualifiers
     source	     1..4930
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="502-1055_RH04"
		     /isolation_source="plasma from male vaccine recipient
		     502-1055"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="USA"
		     /collection_date="Jan-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="ADZ32536.1"
		     /db_xref="GI:325634550"
		     /translation="KTVHTDNGSNFTSNAVKAACWWAGIKQEFGIPYNPQSQGVVESM
		     NKELKQIIGQIRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSAGERIVDIIATDIQTKE
		     LQKQITKIQNFRVYFRDSRDPLWKGPAKLLWKGEGAVVIQDNGDIKVVPRRKAKIIRD
		     YGKQMAGDDCVASRQDED"
     gene	     483..1061
		     /gene="vif"
     CDS	     483..1061
		     /gene="vif"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vif protein"
		     /protein_id="ADZ32537.1"
		     /db_xref="GI:325634551"
		     /translation="MENRWQVMIVWQVDRMRIRTWKSLVKHHMHISGKAKKWSYRHHY
		     ESTNPRVSSEVHIPLGDARLVITTYWGLHTGERDWHLGQGVSIEWRKRRYSTQIDPGL
		     ADQLIHLYYFDCFSESAIRKAILGHIVSPRCEYQAGHNKVGSLQYLALAALITPKKRK
		     PPLPSVAKLIEDRWNKPQKTKGHKGSHTMSGH"
     gene	     1001..1291
		     /gene="vpr"
     CDS	     1001..1291
		     /gene="vpr"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpr protein"
		     /protein_id="ADZ32538.1"
		     /db_xref="GI:325634552"
		     /translation="MEQAPEDQGPQREPYNEWTLELLEELKHEAVRHFPRLWLHGLGQ
		     HIYETYGDTWAGVEALIRMLQQLIFVHFRIGCRHSRIGSLRRRRARNGASRS"
     gene	     1504..1755
		     /gene="vpu"
     CDS	     1504..1755
		     /gene="vpu"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="ADZ32539.1"
		     /db_xref="GI:325634553"
		     /translation="MTHLVIYAIVALVVVGIIAIIVWSIVLIEYRKILRQRRIDRLID
		     RIRDREEDSGIESDGDREELSALVVEMGHHAPWDGNDDL"
     gene	     1667..4231
		     /gene="env"
     CDS	     1667..4231
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="ADZ32540.1"
		     /db_xref="GI:325634554"
		     /translation="MRVMETGKNYQHWWWRWGTMLLGMVMMICSAAEKDQFWVTVYYG
		     VPVWKEATTTLFCASDAKAYETEKHNVWATHACVPTDPNPQEIVMENVTEDFNMWKNN
		     MVEQMHEDIISLWDQSLKPCVKLTPLCVTLNCTNVTMANSMTNDTSDKITDGMKNCSF
		     EIATEIRDKMQKQYAVFYNLDIVPINDNTNSSATNYRLISCNTSAITQACPKVSFEPI
		     PIHYCTPAGFAILKCNDKKFNGTGPCKNVSTVQCTHGIRPVVSTQFLLNGSLAEEEVM
		     IRSANFSNNAKTIIVQLNQSVVINCTRPNNNTRKSIHIAPGRTFYATGEIIGDIRQAH
		     CNISRTAWNNTLKMVAEKLREQFNKTIIFNRSSGGDLETVTHSFNCGGEFFYCNTTAL
		     FNSTWGANSTWEITNDTEIILPCRIRQIINMWQEVGKAMYAPPISGNISCSSNITGLL
		     LTRDGGNGNGTKNETFRPTGGDMRDNWRSELYKYKVVRIEPLGVAPTKAKRRVVQREK
		     RAVGLGAXFLGFLGAAGSTMGAASVTLTVQARQLLSGIVQQQSNLLRAIEAQQHMLQL
		     TVWGIKQLQARVLAVERYLKDQQLLGIWGCSGKLICPTAVPWNISWSNKTQDEIWNNM
		     TWMQWEREIDNYTGLIYTLIEKSQSQQEKNEQELLELGKWASLWSWFDITNWLWYIRI
		     FIMIVGGLVGLRIVFTVLSIVNRVRKGYSPLSFQTHSPAPRGPDRPEGIEEEGGERDR
		     DRSGRLVTGFLAIIWVDLRSLILFLYHRLRDLLLIVTRIVELLGRRGREILKLWWNLL
		     QYWSQELKNSAVSLLNTTAIVVAEGTDRIIEFLQRAFRAILHIPTRIRQGFERALL"
     gene	     4233..4850
		     /gene="nef"
     CDS	     4233..4850
		     /gene="nef"
		     /codon_start="1"
		     /transl_table="1"
		     /product="nef protein"
		     /protein_id="ADZ32541.1"
		     /db_xref="GI:325634555"
		     /translation="MGGKWSKRKGDGWPAVRERMRQTEPAAVGVGAASRELEKHGAIT
		     SNTAANNPDCAWLEAQEEEEVGFPVRPQVPLRPMTYKEALDLSHFLKEKGGLEGLIHS
		     QKRQDILDLWVYHTQGFFPDWQNYTPGPGVRYPLTFGWCFKLVPVDPEKIEEANKGET
		     NCLLHPMSQHGIDDPEREVLQWKFDSRLAFHHMARELHPEYYKNC"
BASE COUNT     1716 a	 861 c	 1211 g   1141 t      1 other
ORIGIN
       1 aaaaacagta catacagata atggcagcaa tttcaccagt aatgcagtta aggccgcctg 
      61 ttggtgggcg gggatcaagc aggaatttgg cattccctac aatccccaaa gtcaaggagt 
     121 agtagaatct atgaataaag aattaaagca aattatagga cagataagag atcaggctga 
     181 acatcttaaa acagcagtac aaatggcagt cttcatccac aattttaaaa gaaaaggggg 
     241 gattgggggg tacagtgcag gggaaagaat agtagacata atagcaacag acatacaaac 
     301 taaagaacta caaaaacaaa ttacaaaaat tcaaaatttt cgggtttatt tcagggacag 
     361 cagagatcca ctttggaaag gaccagcaaa gctgctctgg aaaggtgaag gggcagtagt 
     421 aatacaagat aatggtgata taaaagtagt gccaagaaga aaagcaaaga tcattaggga 
     481 ttatggaaaa cagatggcag gtgatgattg tgtggcaagt agacaggatg aggattagaa 
     541 catggaaaag tttagtaaaa caccatatgc atatctcagg gaaagctaag aaatggtctt 
     601 atagacatca ctatgaaagc actaatccaa gagtaagttc agaggtacac atcccactag 
     661 gggatgctag attggtaata acaacatatt ggggtctgca tacaggagaa agagactggc 
     721 atttgggtca gggagtctcc atagaatgga ggaaaagaag atatagcaca caaatagacc 
     781 ctggcctagc agaccaacta attcacctgt attactttga ttgtttttca gaatctgcta 
     841 taagaaaagc catattagga catatagtta gtcctaggtg tgaatatcaa gcaggacata 
     901 acaaggtagg atctctacag tacttggcac tagcagcatt aataacacca aaaaagagaa 
     961 agccaccttt gcctagtgtt gcaaaactga tagaggacag atggaacaag ccccagaaga 
    1021 ccaagggcca caaagggagc catacaatga gtggacacta gagcttttag aggaacttaa 
    1081 gcatgaagct gtcagacact ttcctaggct ttggctccat ggcttagggc aacatatcta 
    1141 tgaaacttat ggggatactt gggcaggagt ggaagcccta ataagaatgc tgcaacaact 
    1201 gatctttgtc catttcagaa ttggatgtcg acatagcagg ataggcagtt tgcgacggag 
    1261 gagagcaaga aatggagcca gtagatccta gactagagcc ctggaagcat ccaggaagtc 
    1321 agcctaaaac tgcttgtagc aagtgctatt gtaaacagtg ttgctttcat tgccaagttt 
    1381 gtttcataac aaaaggctta ggcatctcct atggcaggaa gaagcggaga cagcgacgaa 
    1441 gagctcatca aggcagtgag actcatcaag ttcctctatc aaagcagtaa gtaatacatg 
    1501 taaatgacac atttagtgat atatgcaata gtagcattgg tagtagtagg aataatagca 
    1561 ataattgtgt ggtccatagt actcatagaa tataggaaaa tattaagaca aaggagaata 
    1621 gacaggttaa ttgatagaat aagagataga gaagaagata gtggcattga gagtgatgga 
    1681 gaccgggaag aattatcagc actggtggtg gagatggggc accatgctcc ttgggatggt 
    1741 aatgatgatc tgtagtgctg cagaaaaaga tcaattttgg gtcacagtct attatggggt 
    1801 acctgtgtgg aaagaggcaa ccaccactct attttgtgca tctgatgcta aagcatatga 
    1861 aacagagaag cataatgtat gggccacaca tgcctgtgta cccacagacc ccaacccaca 
    1921 agaaatagta atggaaaatg tgacagaaga ttttaacatg tggaaaaata acatggtaga 
    1981 acagatgcat gaagatataa ttagtttatg ggatcaaagt ctaaagccat gtgtaaaatt 
    2041 aaccccactc tgtgttactt taaattgcac taatgttacc atggcaaata gcatgacgaa 
    2101 tgataccagt gacaagatta ccgatggaat gaaaaattgc tcattcgaaa tcgccacaga 
    2161 aataagagat aagatgcaga aacaatatgc agttttttat aatcttgata tagtaccaat 
    2221 aaatgataat actaatagta gtgctactaa ctataggttg ataagttgta acacctcagc 
    2281 cattacacaa gcctgcccaa aggtgtcctt tgaaccaatt cccatacatt attgtacccc 
    2341 ggctggtttt gcgattctaa aatgtaatga taaaaagttc aatggaacag gaccatgtaa 
    2401 aaatgttagc acagtacaat gtacacatgg aattaggcca gtggtatcaa cccaatttct 
    2461 gttaaatggc agcctagcag aggaagaggt aatgattaga tctgccaatt tctcgaataa 
    2521 tgctaaaacc ataatagtac agctgaatca atctgtagta attaattgta caagaccaaa 
    2581 caacaataca agaaaaagta tacatatagc accagggaga acattttatg caacaggaga 
    2641 aataatagga gatataagac aagcacattg caacattagt agaacagcat ggaataacac 
    2701 tttgaaaatg gtagctgaaa aattaagaga acaatttaat aaaacaataa tctttaatcg 
    2761 ttcctcagga ggggacctag aaactgtaac acacagtttt aactgtggag gggaattttt 
    2821 ctattgtaac acaacagcac tgtttaatag tacttggggg gctaacagta cttgggagat 
    2881 tacaaatgac actgaaatca tactcccatg cagaataaga caaatcataa acatgtggca 
    2941 ggaagtagga aaagcaatgt atgcccctcc cattagtgga aacattagtt gctcatcaaa 
    3001 tattacaggg ttactattaa caagagatgg gggtaatgga aatggtacca aaaacgagac 
    3061 cttcagacct acaggagggg atatgaggga caattggaga agtgaattgt ataaatataa 
    3121 agtagtaaga attgaaccat taggagtagc acccaccaag gcaaagagaa gagtggtgca 
    3181 gagagaaaaa agagcagtgg gactaggagc trtgttcctt gggttcttgg gagcagcagg 
    3241 aagcactatg ggcgcagcgt cggtaacgct gacggtacag gccagacaat tattgtctgg 
    3301 tatagtgcag cagcagagca atctgctgag agctattgag gcgcaacagc atatgttgca 
    3361 actcacagtc tggggcatca agcagctcca ggcaagagtc ctggctgtgg aaagatacct 
    3421 aaaggatcaa cagctcctgg ggatttgggg ttgctctgga aaactcatct gccccactgc 
    3481 tgtgccttgg aatattagtt ggagtaataa aactcaggat gaaatttgga ataacatgac 
    3541 ctggatgcag tgggaaagag aaattgacaa ttacacaggc ttaatataca ccttaattga 
    3601 aaaatcgcag agccaacaag aaaagaatga acaagaatta ttggaattgg gtaaatgggc 
    3661 aagtttgtgg agttggtttg atataacaaa ttggctgtgg tatataagaa tattcataat 
    3721 gatagtagga ggcttggtag gtttaagaat agtttttact gtgctttcta tagtaaatag 
    3781 agttaggaag ggatactcac cactatcgtt tcagacccac tccccagccc cgaggggacc 
    3841 cgacaggccc gaaggaatcg aagaagaagg tggagagaga gacagagaca gatccggacg 
    3901 attagtgact ggattcttag caatcatttg ggtcgaccta cggagcctga ttcttttcct 
    3961 ctaccaccgc ttgagagact tactcttgat tgtaacgagg attgtggaac ttctgggacg 
    4021 cagggggcgg gaaattctca aactttggtg gaatctcctg cagtattgga gtcaggaact 
    4081 aaagaatagt gctgttagct tgctcaatac cacagcaata gtagtagctg aggggacaga 
    4141 taggattata gaattcttac aaagagcttt tagagctatt ctccacatac ctacaagaat 
    4201 cagacagggc tttgaaaggg ctttgctata agatgggtgg caagtggtca aaacgcaagg 
    4261 gggatggatg gcctgctgta agagaaagaa tgagacaaac ggagccagca gcagttgggg 
    4321 taggggcagc ctctcgagag ctagaaaaac atggagcaat cacgagtaat acagcagcta 
    4381 acaatcctga ttgtgcctgg ctagaagcac aagaggaaga ggaagtgggt tttccagtca 
    4441 gacctcaggt acctctaaga ccaatgactt acaaggaagc tttagatctt agccactttt 
    4501 taaaagaaaa ggggggactg gaagggctaa ttcactcaca aaaaagacaa gatatccttg 
    4561 atctgtgggt ctaccacaca caaggcttct tccctgattg gcagaactac acaccagggc 
    4621 caggggtcag atacccattg acctttggat ggtgcttcaa gctagtacca gtagatccag 
    4681 agaagataga agaggccaat aaaggagaga ccaactgctt attacaccct atgagccagc 
    4741 atgggataga tgacccggag agagaagtgt tacagtggaa gtttgacagc cgcctagcat 
    4801 ttcatcacat ggcaagagag ctgcatccgg agtactacaa gaactgctga catcgagctt 
    4861 tctataaggg actttccgct ggggactttc caggggaggc gtggcctggg cgggacaggg 
    4921 gagtggcgag 
//
last modified: Tue May 31 10:56 2022


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