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LOCUS JF320037 5072 bp RNA linear VRL 11-MAR-2011
DEFINITION HIV-1 isolate 502-0227_LH02 from USA gag protein (gag) gene,
complete cds; pol protein (pol) gene, partial cds; and vif protein
(vif) and vpr protein (vpr) genes, complete cds
ACCESSION JF320037
VERSION JF320037.1 GI:325634783
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 5072)
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
502-0227 Patient sex M HLA type B*4001 CW*0304 A*0301 CW*0303
A*0201 B*1501 Sample date Apr-2006 Days from last seronegative
sample 28 Days between evidence of infection and sampling 0 Sample
tissue plasma Molecule RNA Viral Load 2400000 Sequence name
502-0227_LH02 Subtype B ##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..5072
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="502-0227_LH02"
/isolation_source="plasma from male vaccine recipient
502-0227"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="USA"
/collection_date="Apr-2006"
/note="subtype: B"
gene 2..1513
/gene="gag"
CDS 2..1513
/gene="gag"
/codon_start="1"
/transl_table="1"
/product="gag protein"
/protein_id="ADZ32740.1"
/db_xref="GI:325634784"
/translation="MGARASVLSGGELDRWEKIRLRPGGKKTYKLKHIVWASRELERF
AVNPGLLETSQGCRQILGQLQPSLPTGSEELRSLYNTIAVLYCVHQRIEVKDTKEALD
KIEEEQNKGKKQAQQAAADTGSSSKVSQNYPIVQNIQGQMVHQPISPRTLNAWVKVVE
EKAFSPEVIPMFSALSEGATPQDLNTMLNTVGGHQAAMQMLKETINEEAADWDRLHPV
HAGPVAPGQMREPRGSDIAGTTSTLQEQIGWMTNNPPIPVGEIYKRWIILGLNKIVRM
YSPASILDIRQGPKEPFRDYVDRFYKTLRAEQASQEVKNWMTETLLVQNANPDCKTIL
KALGPGATLEEMMTACQGVGGPGHKARVLAEAMSQVTNSATIMMQKGNFRNQRKPIKC
FNCGKEGHLARNCRAPRKRGCWKCGKEGHQMKDCTERQANFLGKIWPSNKGRPGNFPQ
GRLTPTAPPAPPEESFRFGEETTNPSQRQEPIDQERYPLTSLRSLFGNDPSSQ"
gene <1297..4317
/gene="pol"
CDS <1297..4317
/gene="pol"
/codon_start="1"
/transl_table="1"
/product="pol protein"
/protein_id="ADZ32741.1"
/db_xref="GI:325634785"
/translation="FFRENLAFQQGKAREFSSGQTNTNSPTSPTRRELQVWGGDNKPL
SKAGTDRPGTVSFNLPQITLWQRPLVAIKIGGQLKEALLDTGADDTVLEDMNLPGKWK
PKMIGGIGGFIKVRQYDQIPIEICGHKAIGTVLVGPTPVNIIGRNLLTQLGCTLNFPI
SPIETVPVKLKPGMDGPKVKQWPLTEEKIKALVEICTEMEKEGKISKIGPENPYNTPV
FAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSV
PLYEDFRKYTAFTIPSTNNETPGIRYQYNVLPQGWKGSPAIFQCSMTKILEPFRKQNP
DMVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLGWGFTTPDKKHQKEPPFLWMGYEL
HPDKWTVQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLCKLLRGAKALTEV
IPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGLGQWTYQIYQEPFKNLK
TGKYARMRGAHTNDVKQLTEAVQKISMESIVIWGKTPKFRLPIQKETWETWWTEYWQA
TWIPEWEFVNTPPLVKLWYQLEKEPVVGAETFYVDGAANRETKSGKAGYVTNKGRHKV
ISLTDTTNQKTELQAIHLALQDSGLEVNIVTDSQYALGIIQAQPDKSESELVNQIIEQ
LIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIRKVLFLDGIDKAQEEHEKYHSNWRAM
ASDFNLPPVVAKEIVASCDKCQLKGEAMHGQVDCSPGIWQLDCTHLEGKVIIVAVHVA
SGYIEAEVIPAETGQETAYFLLKLAGRWPVKTIHTDNGSNFTSTTVKAACWWAGIKQE
FGIPYNPQSQGVVESMNKELKKIIGQVRDQAEHLKTAVQMAVFIHNFKRKGGIGGYSA
GERIIDIIASDLQTKALQNQITKIQNFRVYYRDSRDPLWKGPAKLLWKGEGAVVIQDN
SDIKVVPRRKAKIIRDYGKQMAGDDCVASRQDED"
gene 4262..4840
/gene="vif"
CDS 4262..4840
/gene="vif"
/codon_start="1"
/transl_table="1"
/product="vif protein"
/protein_id="ADZ32742.1"
/db_xref="GI:325634786"
/translation="MENRWQVMIVWQVDRMRIRAWKSLIKHHMYISKKARGWFYRHHY
ESHHPKISSEVHIPLGDARLVITTYWGLHTGERDWHLGQGVSIEWRKERYSTQVDPDL
ADQLIHLYYFNCFSESAIRNAILGHRVSPRCEYQAGHNKVGSLQYLALVALIKPKKTK
PPLPSVKKLTEDRWNKPQKTKGHRGNHTMNGH"
gene 4780..5070
/gene="vpr"
CDS 4780..5070
/gene="vpr"
/codon_start="1"
/transl_table="1"
/product="vpr protein"
/protein_id="ADZ32743.1"
/db_xref="GI:325634787"
/translation="MEQAPEDQGPQREPYNEWTLELLEELKNEAVRHFPRTWLHNLGQ
HIYETYGDTWAGVEAIIRILQQLLFIHFRIGCRHSRIGIIRQRRARNGSSRS"
BASE COUNT 1930 a 885 c 1179 g 1077 t 1 other
ORIGIN
1 gatgggtgcg agagcgtcag tattaagcgg gggagaatta gatagatggg aaaaaattcg
61 gttaaggcca gggggaaaga aaacatataa attaaaacat atagtatggg caagcaggga
121 gctagaacga ttcgcagtta atcctggcct attagaaaca tcacaaggct gtagacaaat
181 attaggacag ttacaaccaa gccttccgac aggatcagaa gaacttagat cattatataa
241 tacaatagca gtcctctatt gtgtgcatca aaggatagag gtaaaagaca ccaaggaagc
301 tttagacaag atagaggagg agcaaaacaa aggtaagaaa caggcacagc aagcagcagc
361 tgacacagga agtagcagca aggtcagcca aaattaccct atagtgcaga acatccaggg
421 gcaaatggta catcagccca tatcacctag aactttaaat gcatgggtaa aagtagtaga
481 agagaaggct ttcagcccag aagtaatacc catgttttca gcattatcag aaggagccac
541 cccacaagat ctaaatacca tgctaaacac agtgggggga caccaagcag ctatgcaaat
601 gttaaaagag accatcaatg aggaagctgc agattgggat agattacatc cagtgcatgc
661 agggcctgtt gcaccaggcc agatgagaga accaagggga agtgacatag caggaactac
721 tagtaccctt caggaacaaa taggatggat gacaaataat ccacctatcc cagtaggaga
781 aatctataaa agatggataa tcctgggatt aaataaaata gtaaggatgt atagtcccgc
841 cagcattctg gacataagac aaggaccaaa agaacccttt agagactatg tagaccggtt
901 ctataaaact ctaagagccg agcaagcctc acaggaggta aaaaattgga tgacagaaac
961 cttgttggtc cagaatgcga acccagattg taaaacaatt ttaaaagcat tgggaccagg
1021 agctacacta gaagaaatga tgacagcatg tcagggagtg ggaggacctg gccataaagc
1081 aagagttttg gcagaagcaa tgagccaagt aacaaattca gctacaataa tgatgcagaa
1141 aggcaacttt aggaaccaaa gaaagcctat taagtgtttc aattgtggca aagaagggca
1201 cctagctaga aattgcaggg ctcctaggaa aagaggctgc tggaaatgtg gaaaggaagg
1261 acaccaaatg aaagattgta ctgagaggca ggctaatttt ttagggaaaa tctggccttc
1321 caacaaggga aggccaggga attttcctca gggcagacta acaccaacag ccccaccagc
1381 cccaccagaa gagagcttca ggtttgggga ggagacaaca aacccctctc aaaggcagga
1441 accgatagac caggaacggt atcctttaac ctccctcaga tcactctttg gcaacgaccc
1501 ctcgtcgcaa taaagatagg ggggcaacta aaagaggctc tattagatac aggagcagat
1561 gatacagtat tagaagacat gaatttgcca ggaaaatgga aaccaaaaat gataggggga
1621 attggaggtt ttatcaaagt aagacaatat gatcagatac ctatagaaat ctgtggacat
1681 aaagctatag gtacagtatt agtaggaccc acacctgtca acataattgg aagaaatctg
1741 ttgactcaac ttggttgcac tttaaatttt cccattagtc ctattgaaac tgtaccagta
1801 aaattaaagc caggtatgga tggcccaaaa gttaaacaat ggccattgac agaagaaaaa
1861 ataaaagcat tagtagaaat ttgtacagag atggaaaagg aagggaaaat ttcaaaaatt
1921 gggcctgaaa atccatacaa tactccagta tttgccataa agaaaaaaga tagtactaaa
1981 tggagaaaat tagtagattt cagagaactt aataagagaa ctcaagactt ctgggaagtc
2041 caattaggaa taccccatcc cgcggggtta aaaaagaaaa aatcagtaac agtattagat
2101 gtgggggatg catatttttc agttccctta tatgaagatt tcaggaagta tactgcattt
2161 accataccta gtacaaacaa tgagacacca gggattagat atcagtacaa tgtgcttcca
2221 cagggatgga aaggatcacc agcaatattc caatgcagca tgacaaaaat cttagagcct
2281 ttcagaaaac aaaatccaga catggttatc tatcaataca tggatgatct gtatgtaggt
2341 tctgatttgg aaatagggca gcatagaaca aaaatagagg aactgagaca acatctgttg
2401 ggatggggat ttaccacacc agacaaaaaa catcagaaag aacctccatt cctttggatg
2461 ggttatgaac tccaccctga taaatggaca gtacagccta tagtgctgcc agaaaaagac
2521 agctggactg tcaatgacat acagaagtta gtgggaaaac taaattgggc gagtcagatt
2581 tacccaggaa ttaaagtcag gcaattatgt aaactcctta ggggagccaa agcactaaca
2641 gaagtaatac cactgacaga agaagcagag ctagaactgg cagaaaacag ggaaattcta
2701 aaagaaccag tacatggagt gtattatgac ccatcaaaag acttaatagc agagatacag
2761 aaacaggggc taggtcaatg gacatatcaa atttatcaag agccatttaa aaatctgaaa
2821 acaggaaaat atgcaagaat gaggggtgcc cacactaatg atgtaaaaca gttaacagag
2881 gcagtgcaaa aaatatccat ggaaagcata gtaatatggg gaaaaactcc taaatttaga
2941 ctacccatac aaaaagaaac gtgggaaaca tggtggacag agtattggca ggccacctgg
3001 attcctgaat gggagtttgt caatacccct cccttagtga aattatggta ccagttagag
3061 aaagaacccg tagtaggagc agagactttc tatgtagatg gggcagctaa tagggagact
3121 aaatcaggaa aagcaggata ygttactaat aaaggaagac acaaagtcat ctccctaact
3181 gacacaacaa atcagaagac tgagttacaa gcaattcatc tagctttaca ggactcggga
3241 ttggaagtaa acattgtaac agactcacaa tatgcattag gaattattca agcacaacca
3301 gataaaagtg aatcagaatt agttaatcaa ataatagagc agttaataaa aaaggaaaag
3361 gtctacctgg catgggtacc agcacacaaa ggaattggag gaaatgaaca agtagataaa
3421 ttagtcagtg ctggaatcag gaaagtacta tttttagatg gaatagataa agcccaagaa
3481 gaacatgaaa aatatcacag taattggaga gcaatggcta gtgattttaa cctgccacct
3541 gtagtagcaa aggagatagt agccagttgt gacaaatgtc agctaaaagg ggaagccatg
3601 catggacaag tagactgtag tccaggaata tggcaactag actgtacaca tttggaagga
3661 aaggttatca tagtagcagt tcatgtagcc agtggatata tagaagcaga agttattcca
3721 gcagagacag ggcaggaaac agcatacttc ctcttaaaat tagctggacg atggccagta
3781 aaaacaatac atacagacaa tggcagcaat ttcaccagta ctacagttaa ggccgcctgt
3841 tggtgggcgg ggatcaagca ggaatttggc atcccctaca atccccaaag tcaaggagta
3901 gtagaatcta tgaataaaga gttaaagaaa attataggac aggtaaggga tcaggctgaa
3961 catcttaaga cagcagtaca aatggcagta ttcattcaca attttaaaag aaaagggggg
4021 attggggggt acagtgcagg ggaaagaata atagacataa tagcatcaga cctacaaact
4081 aaagcactac aaaaccaaat tacaaaaatt caaaattttc gggtttatta cagggacagc
4141 agagatccac tttggaaagg accagcaaag ctgctctgga aaggtgaagg ggcagtagta
4201 atacaagata atagtgacat aaaagtagtg ccaagaagaa aagcaaagat cattagggat
4261 tatggaaaac agatggcagg tgatgattgt gtggcaagta gacaggatga ggattagagc
4321 atggaaaagt ttaataaaac accatatgta tatttcaaag aaagctaggg gatggtttta
4381 tagacatcac tatgaaagcc atcatccaaa aataagttca gaagtacaca tcccactagg
4441 ggatgctaga ttggtaataa caacatattg gggactgcat acaggagaaa gagattggca
4501 tttgggtcag ggagtctcca tagaatggag gaaagaaaga tatagcacac aagtagaccc
4561 tgacctagca gaccaactaa ttcacctgta ttactttaat tgtttttcag aatctgctat
4621 aagaaatgcc atattaggac atagagttag tcctaggtgt gaatatcaag caggacataa
4681 caaggtagga tctctacagt acttggcact agtagcattg ataaaaccaa aaaagacaaa
4741 gccacctttg cctagtgtta agaaactgac agaggataga tggaacaagc cccagaagac
4801 caagggccac agagggaacc atacaatgaa tggacactag agcttttaga ggagcttaag
4861 aatgaagctg tcaggcattt tcctaggaca tggctccata acttaggaca acatatctat
4921 gaaacttatg gagatacttg ggcaggagtg gaggccataa taagaattct gcaacaactg
4981 ctgtttattc atttcagaat tgggtgccga catagcagaa taggcattat tcgacagagg
5041 agagcaagaa atggatccag tagatcctag ac
//
last modified: Tue May 31 10:56 2022