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LOCUS JQ754194 2580 bp RNA linear VRL 21-MAR-2012
DEFINITION HIV-1 isolate 19157834_3A7 from South Africa envelope glycoprotein
(env) gene, complete cds; nonfunctional vpu protein (vpu) gene,
partial sequence; rev protein (rev) gene, partial cds; and
nonfunctional tat protein (tat) gene, partial sequence
ACCESSION JQ754194
VERSION JQ754194.1 GI:380690772
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 2580)
Show all sequences for reference 1
AUTHORS Parrish,N., Wilen,C., Banks,L., Iyer,S., Pfaff,J.,
Salazar-Gonzalez,J., Salazar,M., Decker,J., Parrish,E., Berg,A.,
Hooper,J., Mahlokozera,T., Yuan,S., Coleman,C., Vermeulen,M.,
Ochsenbauer,C., Tilton,J., Permar,S., Kappes,J., Betts,M.,
Busch,M., Gao,F., Montefiori,D., Haynes,B., Shaw,G., Hahn,B. and
Doms,R.
TITLE Direct Submission
JOURNAL Submitted (06-MAR-2012) Theoretical Biology & Biophysics, Los
Alamos National Laboratory, T6 MS K710, Los Alamos, NM 87545, USA
REFERENCE 2
Show all sequences for reference 2
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
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-1 Database at Los Alamos (hiv.lanl.gov).;
##HIVDataBaseData-START## Patient code 19157834 Patient Cohort
South African National Blood Service Fiebig stage 1 or 2 Patient
sex M Risk Factor not recorded Viral load 275423 Sample tissue
plasma Culture method uncultured Amplification Strategy SGA
##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..2580
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="19157834_3A7"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="South Africa"
/collection_date="2005"
/note="subtype: C"
gene 1..2580
/gene="env"
CDS 1..2580
/gene="env"
/codon_start="1"
/transl_table="1"
/product="envelope glycoprotein"
/protein_id="AFD93463.1"
/db_xref="GI:380690774"
/translation="MRVMGMLRNCQQWWIWGILGFWMLINYNVGGNLWVTVYYGVPVW
KEAKTTLFCASDAKAYEREVHNVWATHACVPTDPNPQEMVLENVTENFNMWKNDMVDQ
MHEDIISLWDQSLKPCVKLTPLCVTLKCGNVTKNNTVTTNDTLNGEIKNCSFNIPTEL
RDKKKNVSALFYSLDIVPLKNESENEYRLISCNTSTITQACPKVSFDPIPIHYCAPAG
YAILKCNNNTFNGTGPCNNVSTVQCTHGIKPVVSTQLLLNGSLAKEGIVIRSENLTNN
VKTIIVQFKTPVKIVCTRPNNNTRKSVRIGPGQTFYATGDIIGNIRQAHCNISEETWN
QTLQNLVTKLKEHFPNKTIQFKPSSGGDLEITTHSFNCRGEFFYCNTSKLFNSTYMAN
NTDVSNSTLNSTSNATITLPCRIKQIINMWQGVGRAMYAPPIAGNITCKSNITGVLLT
RDGGESNGTEEVFRPGGGDMRDNWRSELYKYKVVEIKPLGIAPTGAKRRVVEREKRAV
GIGAVFLGFLGAAGSTMGAASITLTVQARQLLSGIVQQQSNLLRAIEAQQHLLQLTVW
GIKQLQTRVLAIERYLKDQQLLGIWGCSGKLICTTNVPWNSSWSNKSQTDIWNNMTWM
QWDKEINNYTNTIYRLLEESQNQQEKNEKDLLALDSWNNLWNWFDITKWLWYIKIFIM
IVGGLIGLKIIFAVISIVNRVRQGYSPLSFQTLIPQPRGRPDRLGRIEEEGGEQDSDR
SVRLVNGFLALAWEDLRSLCLFSYRLLKDFILVVVRAVELLGRSSLRGIQRGWEALKY
LGSLGQYWGLELKKSAISLLDTIAIAVAEGTDRIIEVVLRIWRALCRIPTRIRQGFEA
ALL"
gene <1..83
/gene="vpu"
misc_feature <1..83
/gene="vpu"
/note="nonfunctional vpu protein due to mutation"
gene <2140..2390
/gene="rev"
CDS <2140..2390
/gene="rev"
/codon_start="3"
/transl_table="1"
/product="rev protein"
/protein_id="AFD93462.1"
/db_xref="GI:380690773"
/translation="PYPTAEGTTRQARKNRRRRWRARQRQIREISERILSSCLGRSAE
PVPFQLPPIERLHIGGSESGGTSGTQQSQGNTEGVGSP"
gene <2140..2233
/gene="tat"
misc_feature <2140..2233
/gene="tat"
/note="nonfunctional tat protein due to mutation"
BASE COUNT 918 a 424 c 604 g 634 t
ORIGIN
1 atgagagtga tggggatgtt gaggaattgt caacaatggt ggatatgggg aatcttaggc
61 ttttggatgc taattaatta taatgtaggg gggaacttgt gggtcacagt ttattatggg
121 gtacctgtgt ggaaagaagc aaaaactacg ctattctgtg catcagatgc taaagcatat
181 gagagagagg tgcataatgt ctgggccaca catgcttgtg tacccacaga ccccaaccca
241 caagaaatgg ttttggaaaa tgtaacagaa aattttaaca tgtggaaaaa tgacatggtg
301 gatcagatgc atgaggatat aatcagttta tgggaccaaa gcctaaagcc atgtgtaaaa
361 ttgaccccac tctgtgtcac tttaaaatgt ggaaatgtta ccaaaaataa tactgttacc
421 accaatgata ccctgaatgg agaaataaaa aattgctctt tcaatatacc cacagagtta
481 agagataaga agaagaatgt atctgcactt ttttatagtc ttgatatagt accacttaag
541 aatgagagtg agaatgagta taggttaata agttgtaaca cctcaaccat aacacaagcc
601 tgtccaaagg tcagttttga cccaattcct atacattatt gtgctccagc tggttatgcg
661 attctaaaat gtaataataa tacattcaat ggaacaggac catgcaataa tgtcagcaca
721 gtacaatgta cacatggaat taagccagtg gtatcaactc aattactgtt aaatggtagt
781 ttagcaaaag aaggaatagt aattagatct gaaaatctga caaataatgt taaaacaata
841 atagtacagt ttaaaacacc tgtaaagatt gtgtgtacaa ggcccaacaa taatacaaga
901 aaaagtgtga ggataggacc aggacaaaca ttctatgcga caggagacat aataggaaat
961 ataagacaag cacattgtaa cattagtgaa gagacatgga atcaaactct acaaaattta
1021 gtaacaaaat taaaagaaca cttccctaat aagacaatac aatttaaacc atcctcagga
1081 ggggatctag aaattacaac gcatagcttt aattgtagag gagaattttt ctattgcaat
1141 acatcaaaac tgttcaatag tacatacatg gctaataata cagacgtgtc taatagtact
1201 ttaaatagta cttcaaatgc aaccatcaca ctcccatgca gaataaaaca aattataaac
1261 atgtggcagg gggtaggacg ggcaatgtat gcccctccca ttgcaggaaa cataacatgt
1321 aagtcaaata tcacaggagt actattgaca cgtgatgggg gagaaagcaa tgggacagaa
1381 gaagtcttca gacctggagg aggagatatg agggacaatt ggagaagtga attatataag
1441 tataaagtgg tagaaattaa gccattagga atagcaccca ctggggcaaa aaggagagtg
1501 gtggagagag aaaaaagagc agtaggaata ggagctgtgt tccttgggtt cttgggagca
1561 gcaggaagca ctatgggcgc agcatcaata acgctgacgg tacaggccag acaattgttg
1621 tctggtatag tgcaacagca aagcaatttg ctgagggcca tagaggcgca acaacatttg
1681 ttgcaactca cggtctgggg cattaagcag cttcagacaa gagtcctggc tatagaaaga
1741 tacctaaagg atcaacagct cctaggaatt tggggctgct ctggaaaact catctgcacc
1801 actaatgtgc cttggaactc cagttggagt aataaatctc aaacagatat ttggaataac
1861 atgacttgga tgcagtggga taaagaaatt aataattaca caaacacaat atacaggctg
1921 cttgaagaat cgcaaaacca gcaagaaaaa aatgaaaagg atttactagc attggacagt
1981 tggaacaatc tgtggaattg gtttgacata acaaaatggc tgtggtatat aaaaatattc
2041 ataatgatag taggaggttt gatagggtta aaaataattt ttgctgtgat ctctatagtg
2101 aatagagtta ggcagggata ctcacctttg tcgtttcaga cccttatccc acagccgagg
2161 ggacgacccg acaggctcgg aagaatcgaa gaagaaggtg gagagcaaga cagcgacaga
2221 tccgtgagat tagtgaacgg attcttagct cttgcctggg aagatctgcg gagcctgtgc
2281 cttttcagct accgcctatt gaaagacttc atattggtgg tagtgagagc ggtggaactt
2341 ctgggacgca gcagtctcag gggaatacag agggggtggg aagcccttaa gtatctggga
2401 agtcttggac agtattgggg tctggaacta aaaaagagtg ctattagtct gcttgatacc
2461 atagcaatag cagtagctga aggaacagat aggattatag aagtagtact aagaatttgg
2521 agagctctct gccgcatacc tacaagaata agacagggct ttgaagcagc attactataa
//
last modified: Tue May 31 10:56 2022