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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JOURNAL Unpublished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