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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


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