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LOCUS KF527114 2578 bp RNA linear VRL 02-SEP-2013
DEFINITION HIV-1 isolate 4403S_C3 from Malawi nonfunctional env protein (env)
gene, complete sequence; and vpu protein (vpu), rev protein (rev),
and tat protein (tat) genes, partial cds
ACCESSION KF527114
VERSION KF527114.1 GI:534812308
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 2578)
Show all sequences for reference 1
AUTHORS Permar,S.R., Salazar,M.G., Gao,F., Cai,F., Learn,G.H., Kalilani,L.,
Hahn,B.H., Shaw,G.M. and Salazar-Gonzalez,J.F.
TITLE Clonal amplification and maternal-infant transmission of
nevirapine-resistant HIV-1 variants in breast milk following
single-dose nevirapine prophylaxis
JOURNAL Retrovirology 10, 88 (2013)
PUBMED 23941304
REFERENCE 2 (bases 1 to 2578)
Show all sequences for reference 2
AUTHORS Permar,S., Salazar,M., Gao,F., Cai,F., Learn,G., Kalilani,L.,
Hahn,B., Shaw,G. and Salazar-Gonzalez,J.
TITLE Direct Submission
JOURNAL Submitted (06-AUG-2013) Medicine, University of Alabama at
Birmingham, 720 20th Street South, 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 (hiv.lanl.gov).;
##HIVDataBaseData-START## Patient code 714904403 Sample city
Blantyre Patient Cohort CHAVI 009 Patient sex F Viral load 519000
CD4 count 208 Patient health status chronic infection Sample tissue
plasma Culture method uncultured Amplification Strategy single
genome amplification Patient comment chronically HIV-infected
Malawian woman Sample timepoint third trimester of pregnancy
##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..2578
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="4403S_C3"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="Malawi"
/collection_date="25-Apr-2008"
/note="subtype: C"
gene 1..2578
/gene="env"
misc_feature 1..2578
/gene="env"
/note="nonfunctional env protein due to mutation"
gene <1..83
/gene="vpu"
CDS <1..83
/gene="vpu"
/codon_start="3"
/transl_table="1"
/product="vpu protein"
/protein_id="AGU35958.1"
/db_xref="GI:534812311"
/translation="ESDGDIEELATMGDMGHLRLLDGVDL"
gene <2141..2388
/gene="rev"
CDS <2141..2388
/gene="rev"
/codon_start="3"
/transl_table="1"
/product="rev protein"
/protein_id="AGU35957.1"
/db_xref="GI:534812310"
/translation="PYPKPEGTRQARKNRRRRWRARQRQIHSISERILSTCLGRPAEP
VPLPLPPIERLSIGDSENGGNSGTQQSQGTTEGVGSP"
gene <2141..2231
/gene="tat"
CDS <2141..2231
/gene="tat"
/codon_start="2"
/transl_table="1"
/product="tat protein"
/protein_id="AGU35956.1"
/db_xref="GI:534812309"
/translation="PLPQARGDPTGSEESKKKVESKTETDPFD"
BASE COUNT 907 a 435 c 605 g 631 t
ORIGIN
1 atgagagtga tggggatatt gaagagttgg caaccatggg ggatatgggg catcttaggc
61 ttttggatgg tgttgacttg tagtgtacta gggaacttgt gggtcacagt ctattatggg
121 gtacctgtgt gaaaagaagc aaaaactact ctattctgtg catcagatgc taaagcatat
181 gagagagaag cgcacaatgt ctgggctaca catgcctgtg tgcccacaga ccccaaccca
241 caagaactgg ttttggaaaa tgtaacagaa aactttaaca tgtggaaaaa tgacatggta
301 gatcagatgc atgaggatat aatcagttta tgggatcaaa gcctaaagcc atgtgtaaag
361 ctgaccccac tctgtgtcac tttagattgt aaaaatagta ctgaaaatat tactgatagc
421 gggaatgtta tagataatgg agaaaggaaa aattgctctt ttaatataac cacagaaata
481 aaagataaga aacagaacgt gtatgcactt tttttataaa cttgatatag taccacttaa
541 tgaggacaac agttcctact atagactaat aaattgtaat acctcagcca taacacaagc
601 ctgtccaaag gtctcttttg acccaattcc tatacattat tgtgcaccag ctggttatgc
661 gattctaaag tgtaataata agacatttaa tgggacagga ccatgtcata atgtcagcac
721 agtacaatgt acacatggaa ttaagccagt ggtatcaact caactactgt taaatggtag
781 cctagcagaa gaagagataa taattagatc taaaaatctg acagacaatg ccaaaataat
841 aatagtacac cttaatgagt ctgtagagat taattgtaca agacccggca acaatacaag
901 aaaaagtata aggataggac caggacaaac attctatgca ccaaatggaa taataggaaa
961 cataagaaaa gcatattgta acattaggga aaagcagtgg aacgacactt taataaaggt
1021 aggaaaaaaa ttagcagaac tcttccctaa taaaagaata aagtttaatt catcctcagg
1081 aggggatcta gaaatcacaa cacatagctt tacttgtgga ggagaatttt tctattgcaa
1141 tacatcagga ttgtttaatg gcacatacga tcctagggat aataatacaa tgagtaattt
1201 aagctcaagt gacaacatca cactcatact cccatgcaaa ataaagcaaa ttataaacat
1261 gtggcagggg gtaggaaaag cgatatatgc ccctcccatt gcaggaaaca taacatgtag
1321 atcaaatatc acaggactac tattgctacg tgatggagga aatacaagtg acccagaaga
1381 gatattcaga cctggaggag gagatatgag ggacaattgg agaagtgaat tatataaata
1441 caaagtggta gaaattaagc cattgggagt agcacccact aaggcaaaaa ggagagtggt
1501 ggagagagaa aaaagagcag tgggaatagg agctgtactc cttgggttct taggagcggc
1561 aggaagcact atgggcgcgg cgtcaataac gctgacggta caggccagac aattgttgtc
1621 tggtatagtg caacagcaaa gcaatttgct gagggctata gaggcgcaac agcatatgtt
1681 gcaactcacg gtctggggca ttaagcagct ccaggctaga gtcctggcca tagaaagata
1741 cctaaaggat caacagctct taggaatttg gggctgctct ggaaaactca tctgcaccac
1801 ttctgtgcct tggaatggca gttggagtca taataaatct ctagaagata tttgggataa
1861 catgacctgg atgcagtggg ataaagaaat taataattac acaaacataa tatacaggct
1921 acttgaggaa tcacaaagcc agcaggaaaa aaatgaacaa gatttattag cattggacag
1981 ttggcaaaat ctgtggaatt ggttcagtat aacaaaatgg ctgtggtata taaaaatatt
2041 cataatgata gtaggaggct tgataggttt aaggataatt tttgctgtgc tttctatagt
2101 gaatagagtt aggcagggat actcaccttt gtcgtttcag acccttaccc caagcccgag
2161 gggacccgac aggctcggaa gaatcgaaga agaaggtgga gagcaagaca gagacagatc
2221 cattcgatta gtgagcggat tcttagcact tgcctgggac gacctgcgga gcctgtgcct
2281 cttcctctac caccgattga gagactttct attggtgata gcgagaacgg tggaaattct
2341 gggacgcagc agtctcaggg gactacagag ggggtgggaa gcccttaaat atctgggaaa
2401 ccttgtgcag tattggggtt cagagataaa aaagagtgct attaatctat ttgataccat
2461 agccatagca gtagctgagg gaacagatag gattatagaa atagtacaaa gaatttatag
2521 agctatctgc aacatacctg taagaataag acagggcttt gaagcagctt tgctataa
//
last modified: Tue May 31 10:56 2022