HIV Databases HIV Databases home HIV Databases home
HIV Sequence Database



Download: ENTIRE SEQUENCE SEQUENCE FRAGMENT start end
Format:  
View NCBI entry		Download GenBank file		Graphics View		Download GFF3 File

LOCUS	    HM070485		    2586 bp    RNA     linear	VRL 16-MAR-2011
DEFINITION  HIV-1 isolate 0301bmL_B3 from Malawi envelope glycoprotein (env)
	    gene, complete cds; and vpu protein (vpu), rev protein (rev), and
	    tat protein (tat) genes, partial cds
ACCESSION   HM070485
VERSION     HM070485.1 GI:325965822
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 2586)
            Show all sequences for reference 1
  AUTHORS   Salazar-Gonzalez,J.F., Salazar,M.G., Learn,G.H., Fouda,G.G.,
	    Kang,H.H., Mahlokozera,T., Wilks,A.B., Lovingood,R.V., Stacey,A.,
	    Kalilani,L., Meshnick,S.R., Borrow,P., Montefiori,D.C., Denny,T.N.,
	    Letvin,N.L., Shaw,G.M., Hahn,B.H. and Permar,S.R.
  CONSRTM   Center for HIV/AIDS Vaccine Immunology A0167854
  TITLE     Origin and Evolution of HIV-1 in Breast Milk Determined by
	    Single-Genome Amplification and Sequencing
  JOURNAL   J. Virol. 85 (6), 2751-2763 (2011)
  PUBMED    21191008
REFERENCE   2 (bases 1 to 2586)
            Show all sequences for reference 2
  AUTHORS   Salazar-Gonzalez,J.F.
  CONSRTM   Center for HIV/AIDS Vaccine Immunology A0167854
  TITLE     Direct Submission
  JOURNAL   Submitted (08-APR-2010) Department of Medicine, Kaul 806,
	    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 (www.hiv.lanl.gov).;
	    ##HIVDataBaseData-START## Patient code 715900301 Sequence Name
	    0301bmL_B3 Subtype C Patient cohort CHAVI 009 Patient sex F Viral
	    Load 1,315 Sample city Blantyre Sample date 04.24.08 Sample tissue
	    breast milk supernatant Culture method uncultured Amplification
	    strategy single genome amplification DBID 1464378245
	    ##HIVDataBaseData-END## Viral load given in GenBank structured
	    comment is the VL for breast milk; the VL data in the LANL HIV
	    database is the patient's plasma VL at the given timepoint.
FEATURES             Location/Qualifiers
     source	     1..2586
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="0301bmL_B3"
		     /isolation_source="HIV-infected lactating woman at 4 weeks
		     post-childbirth"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="Malawi"
		     /collection_date="24-Apr-2008"
		     /note="subtype: C"
     gene	     1..2586
		     /gene="env"
     CDS	     1..2586
		     /gene="env"
		     /codon_start="1"
		     /transl_table="1"
		     /product="envelope glycoprotein"
		     /protein_id="ADZ46555.1"
		     /db_xref="GI:325965826"
		     /translation="MRVRGMMRNWQQWWIWGILGFWMLMMCSVLGNMWVTVYYGVPVW
		     KEAKATLFCASDAKAYEREVHNVWATHACVPTDPNPQEIVLENVTESFNMWKNDMVDQ
		     MHEDIISLWDQSLKPCVRLTPLCVTLNCTDVKVSSNSNDTASGSNSTDNVVMKNCSFN
		     ATTEIKDKKHKVHALFYELDVVSMNNSNNNSMYRLINCNTSAITQSCPKVSFDPIPIH
		     YCAPAGYAILKCNNKTFNGTGPCHNVSTVQCTHGIKPVISTQLLLNGSLAEEEIVISS
		     EKLTNNVKTIIVHLNESVEIVCTRPNNNTRKSVRIGPGQTFYATNAIIGKIRQAYCNI
		     SEYKWNKTLQQVRRKLAEYFPNKTITFNSSSGGDLEITTHSFNCRGEFFYCNTSRLFN
		     GTFNGTYNGNYSGNGTITIPCRIKQIINMWQEVGKAIYAPPIAGNITCKSNITGLLLT
		     RDGGQGPDKDNTTETFRPGGGDMRDNWRSELYKYKVVEIKPLGIAPTTAKRRVVEREK
		     RAVGIGAVFLGFLGAAGSTMGAASITLTVQARQLLFGIVQQQSNLLRAIEAQQHMLQL
		     TVWGIKQLQTRVLAIERYLKDQQLLGMWGCSGKLICTTAVAWNSSWSNKSQSDIWDNM
		     TWMQWDREISNYTNTIYQLLEESQSQQEKNEKELLELDKWNNLWNWFDITKWLWYIKI
		     FIMIVGGLIGLRIIFAVISVANRVRQGYSPLSFQTLIPSPRGPDRLERIEGEGGEQDR
		     DRSIRLVSGFLSLAWDDLRSLCLFSYHQLRDFILIVTRAVQLLGSNSLRGLQRGWEAL
		     KYLGSLVQYWSQELKKSAISLLDTIAIAVAEGTDRIIEVLQRICRAVLNIPRRVRQGF
		     EAALL"
     gene	     <1..83
		     /gene="vpu"
     CDS	     <1..83
		     /gene="vpu"
		     /codon_start="3"
		     /transl_table="1"
		     /product="vpu protein"
		     /protein_id="ADZ46554.1"
		     /db_xref="GI:325965825"
		     /translation="ESEGDDEELATMVDMGHLRLLDVNDV"
     gene	     <2149..2396
		     /gene="rev"
     CDS	     <2149..2396
		     /gene="rev"
		     /codon_start="3"
		     /transl_table="1"
		     /product="rev protein"
		     /protein_id="ADZ46553.1"
		     /db_xref="GI:325965824"
		     /translation="PYPKPEGTRQARKNRRRRWRARQRQIHSISERILVTCLGRPAEP
		     VPFQLPPIERLHIDCDESGATSGKQQSQGTAEGVGSP"
     gene	     <2149..2239
		     /gene="tat"
     CDS	     <2149..2239
		     /gene="tat"
		     /codon_start="2"
		     /transl_table="1"
		     /product="tat protein"
		     /protein_id="ADZ46552.1"
		     /db_xref="GI:325965823"
		     /translation="PLSQARGDPTGSKESKEKVESKTETDPFD"
BASE COUNT	918 a	 434 c	  609 g    625 t
ORIGIN
       1 atgagagtga gggggatgat gaggaattgg caacaatggt ggatatgggg catcttaggc 
      61 ttttggatgt taatgatgtg tagtgtgttg gggaacatgt gggtcacagt ctattatggg 
     121 gtacctgtgt ggaaagaagc aaaagctact ctattctgtg catcagatgc taaagcttat 
     181 gagagagaag tacataatgt ctgggctaca catgcctgtg tacccacaga ccccaaccca 
     241 caagaaatag ttttggaaaa tgtaacagaa agttttaaca tgtggaaaaa tgacatggta 
     301 gatcagatgc atgaggatat aatcagttta tgggatcaaa gcctaaaacc atgtgtaagg 
     361 ctaaccccac tctgtgtcac tttaaattgt acagatgtta aggttagtag taatagtaat 
     421 gatactgcca gtggtagtaa ttctacagat aatgtagtaa tgaaaaattg ctctttcaat 
     481 gcaaccacag aaataaaaga taagaaacat aaggtgcatg cactttttta tgaacttgat 
     541 gtagtatcaa tgaataacag taataacaat agtatgtata gattaataaa ttgcaatacc 
     601 tcagccataa cacaatcctg tccaaaggtc tcttttgacc caattcctat acattattgt 
     661 gcgccagctg gttatgcgat tctaaagtgt aataataaga ctttcaatgg gacaggacca 
     721 tgccataatg tcagcacagt acaatgtaca catggaatta agccagtgat atcaactcaa 
     781 ctactgttaa atggtagcct agcagaagaa gagatagtaa ttagctctga aaagttgaca 
     841 aacaatgtca aaacaataat agtacacctt aatgaatctg tggaaattgt gtgtacaaga 
     901 cccaacaata atacaaggaa aagtgtaagg ataggaccag gacaaacatt ctatgcaaca 
     961 aatgccataa tagggaaaat aagacaagca tattgtaaca ttagtgaata taaatggaac 
    1021 aaaactttac aacaggtaag aagaaaatta gcagaatact tccctaataa aacaataacg 
    1081 tttaactcat cctcaggagg ggatctagaa atcacaaccc atagctttaa ttgtagagga 
    1141 gaatttttct attgcaatac atcaagacta tttaatggaa catttaatgg aacatacaat 
    1201 gggaattaca gtgggaatgg taccatcacc ataccatgca gaataaaaca aattataaat 
    1261 atgtggcagg aggtaggaaa ggcaatatat gcccctccca ttgcaggaaa cataacatgt 
    1321 aaatcaaata tcacaggact actactgaca cgtgatggag gacaaggacc agataaagat 
    1381 aacacaacag agacattcag acctggagga ggagacatga gggacaattg gagaagtgaa 
    1441 ttatataaat ataaagtagt agaaattaag ccattgggaa tagcacccac tacggcaaaa 
    1501 agaagagtgg tggagagaga aaaaagagca gtgggaatag gagctgtgtt ccttgggttc 
    1561 ttgggagcag caggaagcac tatgggcgca gcgtcaataa cgctgacggt acaggccaga 
    1621 caactgttgt ttggcatagt gcaacagcaa agcaatttgc tgagagccat agaggcgcaa 
    1681 cagcatatgt tgcaactcac agtctggggc attaagcagc tccagacaag agtcctggcc 
    1741 atagaaagat acctaaagga tcaacagctc ctagggatgt ggggctgctc tggaaaactc 
    1801 atctgcacca ctgctgtggc ctggaactcc agttggagca ataaatcaca gtcagatatt 
    1861 tgggataaca tgacctggat gcagtgggat agagaaatta gtaattacac aaacacgata 
    1921 taccagttat tagaagaatc acaaagccag caggagaaaa atgaaaagga attgttagaa 
    1981 ttggacaaat ggaacaatct gtggaattgg tttgacataa caaagtggct gtggtatata 
    2041 aaaatattca taatgatagt aggaggcttg ataggtttaa gaataatttt tgcagtgatc 
    2101 tctgtagcga atagagttag gcagggctac tcacctttgt cttttcagac ccttatccca 
    2161 agcccgaggg gacccgacag gctcgaaaga atcgaaggag aaggtggaga gcaagacaga 
    2221 gacagatcca ttcgattagt gagcggattc ttgtcacttg cctgggacga cctgcggagc 
    2281 ctgtgccttt tcagctacca ccaattgaga gacttcatat tgattgtgac gagagcggtg 
    2341 caacttctgg gaagcaacag tctcagggga ctgcagaggg ggtgggaagc ccttaagtat 
    2401 ctgggaagtc ttgtgcagta ttggagtcag gaactaaaaa agagtgctat tagtctgctt 
    2461 gataccatag caatagcagt agctgaggga acagatagga ttatagaagt actacaaaga 
    2521 atttgtagag ctgtcctcaa tatacctaga agagtaagac agggctttga agcagctttg 
    2581 ctataa
//
last modified: Tue May 31 10:56 2022


Questions or comments? Contact us at seq-info@lanl.gov.