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LOCUS	    HQ595763		    2607 bp    RNA     linear	VRL 08-DEC-2010
DEFINITION  HIV-1 isolate 20258279_v2 from South Africa envelope glycoprotein
	    (env) gene, complete cds; vpu protein (vpu) and rev protein (rev)
	    genes, partial cds; and tat pseudogene, partial sequence
ACCESSION   HQ595763
VERSION     HQ595763.1 GI:313510986
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 2607)
            Show all sequences for reference 1
  AUTHORS   Ping,L.-H., Hahn,B.H., Montefiori,D.C., Williamson,C.,
	    Swanstrom,R., Anderson,J.A., Salazar Gonzalez,J.F.,
	    Salazar-Gonzalez,J.F., Salazar,M.G., Iyer,S.S., Learn,G.H.,
	    Decker,J.M., Ping,L.H., Kincer,L., Arney,L., Vermeulen,M. and
	    Saville,A.
  TITLE     CAVD/CA-VIMC Southern Africa HIV-1 Env-pseudotyped Virus Panel
	    Project
  JOURNAL   Unpublished
REFERENCE   2 (bases 1 to 2607)
            Show all sequences for reference 2
  AUTHORS   Hahn,B., Swanstrom,R., Gao,F., Kim,J., Seaman,M., Williamson,C.,
	    Montefiori,D., Iyer,S., Salazar,M., Salazar Gonzalez,J., Learn,G.,
	    Ojeda,S., Decker,J., Ping,L.H., Anderson,J., Kincer,L., Arney,L.,
	    Vermeulen,M. and Saville,A.
  TITLE     Direct Submission
  JOURNAL   Submitted (09-NOV-2010) Medicine, University of Alabama at
	    Birmingham, 720 20th Street South, Birmingham, AL 35294, USA
REFERENCE   3
            Show all sequences for reference 3
  AUTHORS   Parrish,N.F., Wilen,C.B., Banks,L.B., Iyer,S.S., Pfaff,J.M.,
	    Salazar-Gonzalez,J.F., Salazar,M.G., Decker,J.M., Parrish,E.H.,
	    Berg,A., Hopper,J., Hora,B., Kumar,A., Mahlokozera,T., Yuan,S.,
	    Coleman,C., Vermeulen,M., Ding,H., Ochsenbauer,C., Tilton,J.C.,
	    Permar,S.R., Kappes,J.C., Betts,M.R., Busch,M.P., Gao,F.,
	    Montefiori,D., Haynes,B.F., Shaw,G.M., Hahn,B.H. and Doms,R.W.
  TITLE     Transmitted/Founder and Chronic Subtype C HIV-1 Use CD4 and CCR5
	    Receptors with Equal Efficiency and Are Not Inhibited by Blocking
	    the Integrin alpha4beta7
  JOURNAL   PLoS Pathog. 8 (5), E1002686 (2012)
  PUBMED    22693444
REFERENCE   4
            Show all sequences for reference 4
  AUTHORS   Rademeyer,C., Korber,B., Seaman,M.S., Giorgi,E.E., Thebus,R.,
	    Robles,A., Sheward,D.J., Wagh,K., Garrity,J., Carey,B.R., Gao,H.,
	    Greene,K.M., Tang,H., Bandawe,G.P., Marais,J.C., Diphoko,T.E.,
	    Hraber,P., Tumba,N., Moore,P.L., Gray,G.E., Kublin,J.,
	    McElrath,M.J., Vermeulen,M., Middelkoop,K., Bekker,L.-G.,
	    Hoelscher,M., Maboko,L., Makhema,J., Robb,M.L., Abdool Karim,S.,
	    Abdool Karim,Q., Kim,J.H., Hahn,B.H., Gao,F., Swanstrom,R.,
	    Morris,L., Montefiori,D.C. and Williamson,C.
  TITLE     Features of Recently Transmitted HIV-1 Clade C Viruses that Impact
	    Antibody Recognition: Implications for Active and Passive
	    Immunization.
  JOURNAL   PLoS. Pathog.. 12(7); e1005742 (2016)
  PUBMED    27434311
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## Sequence Name 20258279_v2 Patient code
	    20258279 Patient Cohort South African National Blood Service
	    (SANBS) Patient health status acute EIA- WB indeterminant Patient
	    sex F Risk Factor NR Viral load 281838 Sample date 2007 Sample
	    tissue plasma Culture method uncultured Amplification Strategy SGA
	    Subtype C ##HIVDataBaseData-END##
FEATURES             Location/Qualifiers
     source	     1..2607
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="20258279_v2"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="South Africa"
		     /collection_date="2007"
		     /note="represents a transmitted/founder variant subtype:
		     C"
     gene	     1..2607
		     /gene="env"
     CDS	     1..2607
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="ADR66599.1"
		     /db_xref="GI:313510989"
		     /translation="MRVMEMWRNCQQWWIWVILGFWMLMSCNTENLWVTVYYGVPVWR
		     EAKTTLFCASDAKGYEKEVHNVWATHACVPTNPNPHELVLKNVTENFNMWKNDMVDQM
		     HEDIISLWDQSLKPCVKLTPLCVTLHCSDATYKNSNASGTYNNNSASGDVTNIPEMKN
		     CSFNITTEVRDKEKKEYALFYRIDIVPLNEGSSNSSSNFSEYRLINCNTSAITQACPK
		     VSFDPIPIHYCAPAGYAILKCNNKTFNGTGPCTNVSTVQCTHGIKPVVSTQLLLNGSL
		     AEEDIIIRSENLTDNAKTIIVHLNDSVEIVCTRPGNNTRKSMRIGPGQTFYATGEIIG
		     NIREAHCNISKQKWNETMQKVAKKLREHFPNKTIVFNSSSGGDLEITTHSFNCRGEFF
		     YCNTSGLFNITFNGTDIAYNTPNASENITLPCRIKQIINMWQRVGRAMYAPPIAGNIT
		     CKSNITGLLLTRDGGSNSTGTEIFRPGGGDMRDNWRSELYKYKVVEVKPLGIAPTTAR
		     RRVVQREKRAALGAVLLGFLGAAGSTMGAASVALTVQARQLLSGIVQQQSNLLRAIEA
		     QHHLLQLTVWGIKQLQARVLALERYLKDQQLLGLWGCSGKIICTTALPWNGSWSNKSH
		     NDIWNNMTWMEWEREIDNYTDIIYRLLEDSQNQQEKNEQDLLALDSWNNLWNWFSITK
		     WLWYIRIFIMIVGGLIGLRIVFAVLSVVNRVRQGYSPLSFQTLTPNPRGPDRPGRIEE
		     EGGEQDRDRSVRLVSGFLALFWDDLRSLCLFSYHRLRDLLLIAARAAELLGRSSLKGL
		     QRGWEILKYLGSLIQYWGLEIKKSAINLLDTLAIAVAERTDRIIEVLQGICRAILSIP
		     RRIRQGFEAALQ"
     gene	     <1..83
		     /gene="vpu"
     CDS	     <1..83
		     /gene="vpu"
		     /codon_start="3"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="ADR66598.1"
		     /db_xref="GI:313510988"
		     /translation="ESDGDVEELSTMVDMGHLRLLDANEL"
     gene	     <2170..2417
		     /gene="rev"
     CDS	     <2170..2417
		     /gene="rev"
		     /codon_start="3"
		     /transl_table="1"
		     /product="rev protein"
		     /protein_id="ADR66597.1"
		     /db_xref="GI:313510987"
		     /translation="PYPKPEGTRQARKNRRRRWRARQRQIREISERILSSLLGRPTEP
		     VPFQLPPIERLTLDCSESSGTSGTQQPQGTTEGVGNP"
     gene	     <2170..2260
		     /gene="tat"
		     /pseudo="tat"
     CDS	     <2170..2260
		     /gene="tat"
		     /pseudo="tat"
		     /codon_start="1"
		     /transl_table="1"
BASE COUNT	909 a	 444 c	  613 g    641 t
ORIGIN
       1 atgagagtga tggagatgtg gaggaattgt caacaatggt ggatatgggt catcttaggc 
      61 ttttggatgc taatgagttg taatacagag aacttgtggg ttacagtcta ttatggggta 
     121 cctgtgtgga gagaagcaaa aactactcta ttttgtgcat cagatgctaa aggatatgaa 
     181 aaggaggtgc ataatgtctg ggctacacat gcctgtgtac ccacaaaccc caacccacat 
     241 gaattggttt tgaaaaatgt gacagagaat tttaacatgt ggaaaaatga catggtagat 
     301 cagatgcatg aggatataat cagtctatgg gatcaaagcc taaagccatg tgtaaaattg 
     361 accccactct gtgtcactct acactgtagt gatgctacct acaaaaatag taatgctagt 
     421 ggtacctaca ataataatag tgctagtggt gatgttacca acataccgga aatgaaaaat 
     481 tgctctttca atataaccac agaggtaaga gataaggaaa agaaagaata tgcacttttt 
     541 tatagaattg atatagtacc acttaatgag ggtagtagca actctagtag caactttagt 
     601 gagtatagat taataaattg taatacctca gccataacac aagcctgtcc aaaggtctct 
     661 tttgacccaa ttcctataca ttattgtgcg cctgctggtt atgcgattct aaagtgcaat 
     721 aataagacat tcaatggaac aggaccatgc acaaatgtca gcacagtaca atgtacacat 
     781 ggaattaagc cagtggtatc aactcaacta ctgttaaatg gtagcttagc agaagaagac 
     841 ataataatta gaagtgaaaa tctgacagac aatgccaaaa caataatagt acatcttaat 
     901 gactctgtag agattgtgtg tacaagaccc ggcaataata caagaaaaag tatgagaata 
     961 ggaccagggc aaacattcta tgcaacagga gagataatag gaaatataag agaagcacat 
    1021 tgtaacatta gtaaacagaa atggaatgaa actatgcaaa aggtagctaa aaaattaaga 
    1081 gaacacttcc ctaataaaac aatagtattt aattcatcct caggaggaga cctagagatt 
    1141 acaacacata gttttaattg tagaggagaa tttttctatt gcaatacatc aggcctgttt 
    1201 aatattacgt tcaatggtac agacatagct tataatacac caaatgcttc agaaaacata 
    1261 accctcccat gtagaataaa acaaattata aacatgtggc agagggtagg acgagcaatg 
    1321 tatgcccctc ccattgcagg aaacataaca tgtaaatcaa atatcacagg actactcttg 
    1381 acacgtgatg gagggagcaa tagtacaggg acagaaatat tcagacctgg aggaggagat 
    1441 atgagggata attggagaag tgaattatat aaatataaag tagtagaagt taaaccatta 
    1501 ggaatagcac ccactactgc aagaaggaga gtggtgcaga gagaaaaaag agcagcattg 
    1561 ggagctgtgc tcttggggtt cttaggagca gcaggaagca ctatgggcgc ggcgtcggtg 
    1621 gcgctgacgg tacaggccag gcaattattg tctggtatag tgcaacagca aagcaatttg 
    1681 ctgagagcta tagaggcaca acaccatttg ttgcaactca cagtctgggg cattaagcag 
    1741 ctccaggcaa gagtcctggc tctggaaaga tacctaaaag atcaacagct cctaggactt 
    1801 tggggctgct ctggaaaaat catctgcacc actgctttgc cttggaatgg tagttggagt 
    1861 aataaatctc acaacgatat ttggaacaat atgacctgga tggagtggga aagagaaatt 
    1921 gataattaca cagacataat atacaggttg cttgaagact cacagaacca gcaggagaaa 
    1981 aatgaacaag atttactagc attggacagc tggaacaatc tgtggaattg gtttagcata 
    2041 acaaagtggc tgtggtatat aagaatattc ataatgatag taggaggctt aataggttta 
    2101 agaatagttt ttgctgtgct ttctgtagtg aatagagtta ggcagggata ctcacctttg 
    2161 tcatttcaga cccttacccc aaacccgagg ggacccgaca ggcccggaag aatcgaagaa 
    2221 gaaggtggag agcaagacag agacagatcc gtgagattag tgagcggatt cttagctctc 
    2281 ttctgggacg acctacggag cctgtgcctt ttcagctacc accgattgag agacttactc 
    2341 ttgattgcag cgagagcagc ggaacttctg ggacgcagca gcctcaaggg actacagagg 
    2401 gggtgggaaa tccttaagta tctgggaagt ctgatacagt attggggtct agagataaaa 
    2461 aagagtgcta ttaacctgct tgatacctta gcaatagcag tagctgagag aacagatagg 
    2521 attatagaag tgctacaagg aatttgtaga gctatcctta gcatacctag aagaataaga 
    2581 cagggctttg aagcagcttt gcaatag
//
last modified: Tue May 31 10:56 2022


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