HIV Databases HIV Databases home HIV Databases home
HIV Sequence Database



Download: ENTIRE SEQUENCE SEQUENCE FRAGMENT start end
Format:  
View NCBI entry		Download GenBank file		Graphics View		Download GFF3 File

LOCUS	    GU562061		    4679 bp    DNA     linear	VRL 06-APR-2010
DEFINITION  HIV-1 isolate CQLDR03A13 from USA pol protein (pol) gene, partial
	    cds; and vif protein (vif), vpr protein (vpr), tat protein (tat),
	    rev protein (rev), vpu protein (vpu), envelope glycoprotein (env),
	    and nef protein (nef) genes, complete cds
ACCESSION   GU562061
VERSION     GU562061.1 GI:289068517
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 4679)
            Show all sequences for reference 1
  AUTHORS   Bar,K.J., Li,H., Chamberland,A., Tremblay,C., Routy,J.P.,
	    Grayson,T., Sun,C., Wang,S., Learn,G.H., Morgan,C.J.,
	    Schumacher,J.E., Haynes,B.F., Keele,B.F., Hahn,B.H. and Shaw,G.M.
  TITLE     Wide variation in the multiplicity of HIV-1 infection among
	    injection drug users.
  JOURNAL   J. Virol.. 84(12); 6241-7 (2010)
  PUBMED    20375173
REFERENCE   2 (bases 1 to 4679)
            Show all sequences for reference 2
  AUTHORS   Learn,G.H.
  TITLE     Direct Submission
  JOURNAL   Submitted (14-JAN-2010) Medicine, University of Alabama at
	    Birmingham, 720 20th Street South, Kaul 806, Birmingham, AL 35294,
	    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 Database at Los Alamos (www.hiv.lanl.gov).;
	    ##HIVDataBaseData-START## Patient code CQLDR03 Sequence Name
	    CQLDR03A13 Subtype B Sample date 12/19/1997 Patient sex M Infection
	    country CA Fiebig Stage V DBID 531117760 ##HIVDataBaseData-END##
	    Sampling country is USA in GenBank accession records, but data from
	    the paper and authors clearly indicate these sequences were from a
	    Montreal, Canada cohort.
FEATURES             Location/Qualifiers
     source	     1..4679
		     /organism="Human immunodeficiency virus 1"
		     /proviral="Human immunodeficiency virus 1"
		     /mol_type="genomic DNA"
		     /isolate="CQLDR03A13"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="USA: CA"
		     /collection_date="19-Dec-1997"
		     /note="subtype: B"
     gene	     <1..129
		     /gene="pol"
     CDS	     <1..129
		     /gene="pol"
		     /codon_start="1"
		     /transl_table="1"
		     /product="pol protein"
		     /protein_id="ADC81664.1"
		     /db_xref="GI:289068518"
		     /translation="GAVVIQDSGDIKVVPRRKAKIIRDYGKQMAGDDCVASRQDED"
     gene	     74..652
		     /gene="vif"
     CDS	     74..652
		     /gene="vif"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vif protein"
		     /protein_id="ADC81665.1"
		     /db_xref="GI:289068519"
		     /translation="MENRWQVMIVWQVDRMRIKAWKSLVKHHMYISGKAKKWIYRHHY
		     QSTHPRISSEVHIPLGDARLVITTYWGLHTGERDWHLGQGVSIEWRKRRYSTQVDPDL
		     ADRLIHLYYFDCFSESAIRNAILGRLVSPRCECQAGHNKVGSLQYLALTALVKPKKVK
		     PPLPSVRKLTEDRWNKPQKTKGHRGSHTMNGH"
     gene	     592..870
		     /gene="vpr"
     CDS	     592..870
		     /gene="vpr"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpr protein"
		     /protein_id="ADC81666.1"
		     /db_xref="GI:289068520"
		     /translation="MEQAPEDQGPQREPYNEWTLELLEELKSEAVRHFPRPWLHGLGQ
		     HIYETYGDTWRGVEALIRTLQQLLFIHFRIGCRHSRIGIIPRNGARRS"
     gene	     851..3513
		     /gene="tat"
     CDS	     join(851..1065,3423..3513)
		     /gene="tat"
		     /codon_start="1"
		     /transl_table="1"
		     /product="tat protein"
		     /protein_id="ADC81667.1"
		     /db_xref="GI:289068521"
		     /translation="MEPVDPNLEPWKHPGSQPKTACTKCYCKRCCFHCQVCFITKGLG
		     ISYGRKKRRQRRGPPQGSQTHQVSLSKQPTSQPRGDPTGQKEQKKKVEKETETAPPD"
     gene	     990..3697
		     /gene="rev"
     CDS	     join(990..1065,3423..3697)
		     /gene="rev"
		     /codon_start="1"
		     /transl_table="1"
		     /product="rev protein"
		     /protein_id="ADC81668.1"
		     /db_xref="GI:289068522"
		     /translation="MAGRSGDSDEDLLKAVRLIKFLYQSNPPPSPEGTRQARRNRRRR
		     WRRKQKQLHQISNWILTTHLGRPAQPVPLQLPPLERLTLDCSEGCGTSGTQGVGGNQV
		     LVESPAILDSGTKE"
     gene	     1082..1327
		     /gene="vpu"
     CDS	     1082..1327
		     /gene="vpu"
		     /codon_start="1"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="ADC81669.1"
		     /db_xref="GI:289068523"
		     /translation="MPSLYILTIVAFVVTVIIAIVVWTIVIIEYRKILRQRKIDRLID
		     RISERAEDSGNESEGDQEELSALVGMGHHAPWDVNDL"
     gene	     1245..3839
		     /gene="env"
     CDS	     1245..3839
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="ADC81670.1"
		     /db_xref="GI:289068524"
		     /translation="MRVKEIRKNCQPLWGWGIMLLGMLMICSATKDLWVTVYYGVPVW
		     KEATTTLFCASDAKAYDTEVHNVWATHACVPTDPNPQEVFLKNVTEYFNMWKNNMVEQ
		     MHEDIISLWDQSLKPCVKLTPLCVTLHCTNLRNGTNLRNDSDNSTTPSPTTTSNITNI
		     EEGEITNCTFNVTTTIGNKMQKQYALFYRLDVQKIDDNGSYALINCNSSVITQACPKV
		     SFEPIPIHYCAPAGFAILKCKDKKFNGTGPCKNVSTVQCTHGIRPVVSTQLLLNGSLA
		     EEEVVIRSENLTNNAKTIIVQLNESVAINCTRPNNNTRKSIHIAPGSAFYATGAIIGD
		     IRQAHCNISRQQWNNTLEKIVTKLREQFVNKTIIFNQSSGGDPEIVMHNFNCGGEFFY
		     CNSTQLFNSTWFKNNTWIGSNGTENITLPCRIKQIINRWQEVGKAMYAPPISGVISCS
		     SNITGLILTRDGGRGDVNNTNETEIFRPGGGDMRDNWRSELYKYKVVKIEPLGIAPTK
		     AKRRVVQREKRAVTFGALFLGFLGAAGSTMGAASITLTAQARLLLSGIVQQQNNLLRA
		     IEAQQHLLQLTVWGIKQLQARVLAVERYLRDQQLLGIWGCSGKLICTTAVPWNASWSN
		     KSLEQIWDNMTWMEWEKEIDNYTGLIYTLIEESQNQQEKNEQELLALDKWASLWNWFD
		     ISNWLWYIKIFIMIVGGLVGLRVVFTVLSIVNRVRQGYSPLSFQTHLPAPRGPDRPEG
		     TEEEGGEGNRNSSTRLVTGFLPLIWDDLRSLCLFSYHHLRDLLLIVARVVELLGRRGW
		     EAIKYWWNLLQYWIQELKNSAVSLLNATAIAVAEGTDRVIEIVQNICRAILHIPRRIR
		     QGLERALL"
     gene	     3841..4470
		     /gene="nef"
     CDS	     3841..4470
		     /gene="nef"
		     /codon_start="1"
		     /transl_table="1"
		     /product="nef protein"
		     /protein_id="ADC81671.1"
		     /db_xref="GI:289068525"
		     /translation="MGGKWSKRMSGWAAVRERMRRAGPVAEPAADGVGAASRDLERHG
		     ALTSSNTVTNNAACAWLEAQEEEEVGFPVRPQVPLRPMTYKGALDLSHFLKETGGLEG
		     LIYSQRRQDILDLWVYHTQGYFPDWQNYTPGPGIRYPLTFGWCFKLVPLEPEQVEEAN
		     TGENNVLLHPMSQHGMDDPEKEVLVWKFDSRLAFHHMAREKHPEYYKDC"
BASE COUNT     1577 a	 848 c	 1143 g   1111 t
ORIGIN
       1 ggggcagtag taatacaaga tagtggagac ataaaagtag tgccaagaag aaaagcaaag 
      61 atcattaggg attatggaaa acagatggca ggtgatgatt gtgtggcaag tagacaggat 
     121 gaggattaaa gcatggaaaa gtttagtaaa acaccatatg tatatttcag ggaaagctaa 
     181 gaaatggatt tataggcatc actatcaaag cactcatcca agaataagtt cagaagtaca 
     241 catcccacta ggggatgcta gactagtaat aacaacctat tggggtctgc atacaggaga 
     301 aagagactgg catttgggtc agggagtctc catagaatgg aggaaaagga gatatagcac 
     361 ccaagtagac cctgacctag cagaccgact aattcacctg tactattttg attgtttttc 
     421 agaatctgct ataagaaatg ccatattagg acgtttagtt agtcctaggt gtgaatgtca 
     481 agcaggacat aacaaggtag gatctctaca gtacttggca ctaacagcat tagtgaaacc 
     541 aaaaaaggta aagccacctt tgcctagtgt taggaaacta acagaggata gatggaacaa 
     601 gccccagaag accaagggcc acagagggag ccatacaatg aatggacact agagctttta 
     661 gaggaactta agagtgaagc tgttagacat tttcctaggc catggctcca tggcttagga 
     721 caacatatct atgaaactta tggggacact tggagaggag tggaagcctt aataagaact 
     781 ctgcaacaac tgctgtttat acatttcaga attggatgtc gacatagcag aataggcatt 
     841 attccaagga atggagcccg tagatcctaa cttagagccc tggaagcatc caggaagtca 
     901 gcctaagact gcttgtacca agtgctattg taaaaggtgt tgctttcatt gtcaagtttg 
     961 cttcataaca aaaggcttag gcatctccta tggcaggaag aagcggagac agcgacgagg 
    1021 acctcctcaa ggcagtcaga ctcatcaagt ttctctatca aagcagtaag tagtatatgt 
    1081 aatgccatct ttatacatat taacaatagt agcatttgta gtaacagtaa taatagcaat 
    1141 agttgtgtgg accatagtga tcatagaata taggaaaata ttaagacaaa gaaaaataga 
    1201 tagactaatt gatagaataa gtgaaagagc agaggacagt ggcaatgaga gtgaaggaga 
    1261 tcaggaagaa ttgtcagccc ttgtggggat ggggcatcat gctccttggg atgttaatga 
    1321 tctgtagtgc tacaaaagat ttatgggtca cagtctatta tggggtacct gtgtggaaag 
    1381 aagcaaccac cactctattt tgtgcatcag atgctaaagc atatgacaca gaggtacata 
    1441 atgtttgggc cacacatgcc tgtgtaccca cagaccctaa cccacaagaa gtattcttga 
    1501 aaaatgtgac agaatatttt aacatgtgga aaaataacat ggtagaacaa atgcatgagg 
    1561 atataatcag tttatgggat caaagcctaa agccatgtgt gaaattaact ccactctgtg 
    1621 ttactttaca ctgcactaat ttgaggaatg gtactaattt gaggaatgat agtgataaca 
    1681 gtactactcc cagtcctaca actaccagta atataaccaa tatagaagaa ggggaaataa 
    1741 caaactgcac tttcaatgtc accacaacaa taggaaataa gatgcagaaa caatatgcac 
    1801 ttttttatag acttgatgta caaaaaatag atgataatgg tagctatgcg ttgataaatt 
    1861 gtaacagctc agtcattaca caggcctgtc caaaggtatc ctttgaacca attcccatac 
    1921 attattgtgc cccggctggt tttgcgattc taaagtgtaa ggataaaaag ttcaatggaa 
    1981 caggaccatg taaaaatgtc agcacagtgc aatgtactca tggaattaga ccagtagtgt 
    2041 caactcagct gctgttaaat ggcagtctgg cagaagaaga ggtagtgatt agatctgaaa 
    2101 atctcacgaa caatgctaaa accataatag tacagctgaa cgaatctgta gcaattaatt 
    2161 gtacaagacc caacaacaat acaagaaaaa gtatacacat agcaccaggg agcgcatttt 
    2221 atgcaacagg agctataata ggagatataa gacaagcaca ttgtaacatt agtagacaac 
    2281 aatggaataa cactttagaa aagatagtta caaaattaag agaacaattt gtgaataaaa 
    2341 caataatctt taatcaatcc tcaggagggg acccagaaat tgtaatgcac aattttaatt 
    2401 gtggagggga atttttctac tgtaattcaa cacagctgtt taatagtact tggtttaaga 
    2461 ataatacttg gatagggtca aatggcactg aaaatatcac actcccatgc agaataaaac 
    2521 aaattataaa caggtggcag gaagtaggaa aagcaatgta tgcccctccc atcagtggag 
    2581 taattagctg ttcatcaaat attacagggc tgatattaac aagagatggg ggaagaggtg 
    2641 atgttaataa caccaacgag actgagatct tcaggcctgg aggaggagat atgagggaca 
    2701 attggagaag tgaattatat aaatataaag tagtaaaaat tgagccatta ggaatagcac 
    2761 ccaccaaggc aaagagaaga gtggtgcaaa gagaaaaaag agcagtaacg tttggagctt 
    2821 tgttccttgg gttcttggga gcagcaggaa gcactatggg cgcagcgtca ataacgctga 
    2881 cggcacaggc cagactatta ttgtctggta tagtgcaaca gcagaacaat ttgctgagag 
    2941 ctattgaggc gcaacagcat ctgttgcaac tcacagtctg gggcatcaag cagctccagg 
    3001 caagagtcct ggctgtagaa agatacctac gggatcaaca gctcctgggg atttggggtt 
    3061 gctctggaaa actcatttgc accactgctg tgccttggaa tgctagttgg agtaataagt 
    3121 ctctagaaca aatttgggat aacatgacat ggatggagtg ggagaaggaa attgacaatt 
    3181 acacaggctt aatatacacc ttaattgaag aatcgcagaa ccaacaagaa aaaaatgaac 
    3241 aagaattatt ggcattggac aagtgggcaa gtttgtggaa ttggtttgac atatcaaact 
    3301 ggctgtggta tataaaaata ttcataatga tagtaggagg tttagtaggt ttaagagtag 
    3361 tttttactgt actttctata gtgaatagag ttaggcaggg atactcacca ttgtcatttc 
    3421 agacccacct cccagccccg aggggacccg acaggccaga aggaacagaa gaagaaggtg 
    3481 gagaaggaaa cagaaacagc tccaccagat tagtaactgg attcttacca ctcatctggg 
    3541 acgacctgcg cagcctgtgc ctcttcagct accaccactt gagagactta ctcttgattg 
    3601 tagcgagggt tgtggaactt ctgggacgca gggggtggga ggcaatcaag tattggtgga 
    3661 atctcctgca atactggatt caggaactaa agaatagtgc tgttagtttg cttaatgcca 
    3721 cagctatagc agtagctgag gggacagata gagttataga aatagtacaa aacatctgta 
    3781 gagctattct ccacatacct agaagaataa gacagggctt agaaagggct ttgctgtaag 
    3841 atgggtggca agtggtcaaa acgtatgagt ggatgggctg ctgtaaggga aagaatgaga 
    3901 cgagctggac cagtagctga gccagcagca gatggggtgg gagcagcatc tcgagacttg 
    3961 gaaagacatg gagcactcac aagcagcaat acagtaacta acaatgctgc ttgtgcctgg 
    4021 ctagaagcac aagaggagga agaagtgggt tttccagtca gacctcaggt acctttaaga 
    4081 ccaatgactt acaaaggagc gttagatctt agccactttt taaaagaaac ggggggactg 
    4141 gaagggctaa tttactccca aagaagacaa gacatccttg atctgtgggt ttatcacaca 
    4201 caaggctact tccctgattg gcagaactac acaccagggc cagggatcag atatccactg 
    4261 acctttgggt ggtgcttcaa gctagtacca ctcgagccag agcaggtaga ggaggccaat 
    4321 acaggagaga acaacgtctt gttacaccct atgagccagc atgggatgga tgatccagag 
    4381 aaagaagtat tagtgtggaa gtttgacagc cgcctagcat ttcatcacat ggcccgagag 
    4441 aagcatccgg agtactacaa agactgctga cactgagcta tctacaaggg actttccgct 
    4501 ggggactttc cagggaggtg tggcctgggc gggaccgggg agtggcgagc cctcagatgc 
    4561 tgcatataag cagccgcttt ctgcctgtac tgggtctctc tggttagacc agatctgagc 
    4621 ctgggagctc tctggctagc tagggaaccc actgcttaag cctcaataaa gcttgcctt
//
last modified: Tue May 31 10:56 2022


Questions or comments? Contact us at seq-info@lanl.gov.