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LOCUS	    JX202803		    4412 bp    RNA     linear	VRL 16-JAN-2013
DEFINITION  HIV-1 isolate 0B190049_5_J15 from Uganda nonfunctional gag protein
	    (gag) gene, complete sequence; and pol protein (pol) gene, partial
	    cds
ACCESSION   JX202803
VERSION     JX202803.1 GI:441442377
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 4412)
            Show all sequences for reference 1
  AUTHORS   Baalwa,J., Wang,S., Parrish,N.F., Decker,J.M., Keele,B.F.,
	    Learn,G.H., Yue,L., Ruzagira,E., Ssemwanga,D., Kamali,A.,
	    Amornkul,P.N., Price,M.A., Kappes,J.C., Karita,E., Kaleebu,P.,
	    Sanders,E., Gilmour,J., Allen,S., Hunter,E., Montefiori,D.C.,
	    Haynes,B.F., Cormier,E., Hahn,B.H. and Shaw,G.M.
  TITLE     Molecular identification, cloning and characterization of
	    transmitted/founder HIV-1 subtype A, D and A/D infectious molecular
	    clones
  JOURNAL   Virology 436 (1), 33-48 (2013)
  PUBMED    23123038
REFERENCE   2 (bases 1 to 4412)
            Show all sequences for reference 2
  AUTHORS   Shaw,G., Baalwa,J., Wang,S., Parrish,N., Decker,J., Keele,B.,
	    Ruzagira,E., Ssemwanga,D., Kaleebu,P., Kamali,A., Kappes,J.,
	    Cormier,E., Gilmour,J., Fast,P. and Hahn,B.
  TITLE     Direct Submission
  JOURNAL   Submitted (18-JUN-2012) Medicine, University of Pennsylvania, 409
	    Johnson Pavilion 3610 Hamilton Walk, Philadelphia, PA 19104-6076,
	    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-1 Database at Los Alamos (hiv-1.lanl.gov).;
	    ##HIVDataBaseData-START## Patient code 0B190049 Patient sex Female
	    Fiebig stage I Viral load 38266666 Sample tissue Plasma Risk factor
	    Heterosexual ##HIVDataBaseData-END##
FEATURES             Location/Qualifiers
     source	     1..4412
		     /organism="Human immunodeficiency virus 1"
		     /mol_type="genomic RNA"
		     /isolate="0B190049_5_J15"
		     /host="Homo sapiens"
		     /db_xref="taxon:11676"
		     /country="Uganda"
		     /collection_date="21-Jun-2005"
		     /note="IAVI-CHAVI; subtype: D"
     gene	     148..1665
		     /gene="gag"
     misc_feature    148..1665
		     /gene="gag"
		     /note="nonfunctional gag protein due to mutation"
     gene	     <1446..>4412
		     /gene="pol"
     CDS	     <1446..>4412
		     /gene="pol"
		     /codon_start="1"
		     /transl_table="1"
		     /product="pol protein"
		     /protein_id="AGC32058.1"
		     /db_xref="GI:441442378"
		     /translation="FFRENLAFLQGKARKLPSEQTRADSPTSRELRVWGGGSALSETG
		     TERQGAERPGAVSFSFPQITLWQRPLVTVKIEGQLKEALLDTGADDTVLEEMSLPGKW
		     KPKMIGGIGGFIKVRQYDQIQVEICGHKAIGTVLVGPTPVNIIGRNLLTQIGCTLNFP
		     ISPIDTVPVRLKPGMDGPKVKQWPLTEEKIKALTEICTDMEKEGKISRIGPENPYNTP
		     IFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFS
		     VPLYEDFRKYTAFTIPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFRKQN
		     PEMVIYQYMDDLYVGSDLDIGQHRIKIEELRDHLLKWGFTTPDKKHQKEPPFLWMGYE
		     LHPNKWTVQPIKLPEKESWTVNDIQKLVGKLNWASQIYPGIRVKQLCKCLRGAKALTE
		     VVPLTEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGPDQWTYQIYQEQYKNL
		     KTGKYAKTRGTHTNDVKQLTEAVQKIAQECIVIWGKTPKFRLPIQKETWDTWWTEYWQ
		     ATWIPEWEFVNTPPLVKLWYQLEKEPIVGAETFYVDGAANRETKSGKAGYVTDRGRQK
		     VVPLTDTTNQKTELQAINLALQDSGLEVNIVTDSQYALGIIQAQPDRSESELVNQIIE
		     QLIKKEKVYLSWVPAHKGIGGNDQVDKLVSNGIRKILFLDGIDKAQDEHEKYHSNWRA
		     MASDFNLPPVVAKEIVASCDKCQLKGEALHGQVDCSPGIWQLDCTHLEGKVILVAVHV
		     ASGYLEAEVIPAETGQETAYFLLKLAGRWPVKVVHTDNGSNFTSAAVKAACWWAGIKQ
		     EFGIPYNPQSQGVVESMNKELKKIIGQVRDQAEQLKTAVQMAVFIHNFKRKGGIGGYS
		     AGERIIDIIATDIQTKELQKQIIKIQNFRVYYRDSRDPIWKGPAKLLWKGEGAVVIQD
		     NSEIKVVPRRKVKIIRD"
BASE COUNT     1711 a	 755 c	 1031 g    915 t
ORIGIN
       1 ccgaacaggg acttgaaagt gaaagtagaa ccagaggagc tctctcgacg caggactcgg 
      61 cttgctgaag cgcgcacggc aagaggcgag gggcagcgaa cggtgagtac gcaaaatttt 
     121 tgactagcgg aggctagaag gagagagatg ggtgcgagag cgtcagtatt gagcggggga 
     181 aaattagatg aatgggaaaa aattcagtta cggccagggg gaaataaaag atacaagcta 
     241 aaacatatag tatgggcaag cagggagcta gaacgatttg caattaatcc tggcctttta 
     301 gaaacaccag aaggctgtaa acaaatactg ggacagctac aaccagctat tcagacagga 
     361 tcagaggaaa ttaaatcctt atttaataca gtagcaaccc tctattgtgt acatgaaaag 
     421 ataaaggtaa aagacaccaa ggaagcttta gacaagatag aggaagaaca aaccaaaagt 
     481 aagaaaaagg tacagcaagc aacagctgac acaaaaaaca gtaaccaggt cagccaaaat 
     541 tatcctatag tgcaaaacct acaggggcaa atggtacacc aggccttatc acctagaact 
     601 ttaaatgcat gggtaaaagt aatagaggag aaggctttca gcccagaagt aatacccatg 
     661 tttacagcat tatcagaagg agccacccca caagatttaa acaccatgct aaacacagtg 
     721 gggggacatc aagcagctat gcaaatgtta aaagagacca tcaatgagga agctgcagaa 
     781 tgggataggc tacatccagt gcatgcagga cctagtgcac caggccaaat gagagagcca 
     841 aggggaagtg atatagcagg aactactagt acccttcagg aacaaatagg atggatgaca 
     901 agcaatcccc ctatcccagt aggagaaatc tataaaagat ggataatcct aggattaaat 
     961 aaaatagtaa gaatgtatag ccctgtcagc attttggaca taagacaagg accaaaggaa 
    1021 ccctttagag actatgtaga tcggttctat aaaaccctaa gagccgagca agcttcacag 
    1081 gatgtaaaaa attggatgac cgaaaccttg ttggtccaaa atgcgaaccc agattgtaaa 
    1141 actatcttaa aagcattggg accagcagct acgttagaag aaatgatgac agcatgtcag 
    1201 ggagtggggg gacccggtca taaagcaaga gtcttggctg aggcaatgag ccaagcaaca 
    1261 ggtggaaatg ctgttatgat gatgcagaga ggcaatttta agggcccaag gaaaatcatt 
    1321 aagtgtttca actgtggcaa agaagggcac atagcaaaaa attgcagggc tcctaggaaa 
    1381 aggggctgtt ggaaatgtgg aaaggaagga caccaaatga aagattgcac tgaaagacag 
    1441 gctaattttt tagggaaaat ttggccttcc tgcaagggaa ggccaggaaa cttccttcag 
    1501 agcagaccag agccgacagc cccaccagca gagagcttcg ggtttgggga ggaggtagcg 
    1561 ccctctcaga aacaggaacc gaaagacaag gagcagaaag accaggagct gtatccttca 
    1621 gcttccctca aatcactctt tggcaacgac ccctagtcac agtaaagata gagggacagc 
    1681 taaaggaagc tctattagat acaggagcag atgatacagt attagaagaa atgagtttgc 
    1741 ctggaaaatg gaaaccaaaa atgatagggg gaattggagg ctttatcaaa gtaagacaat 
    1801 atgatcaaat acaagtagaa atctgtggac ataaagctat aggtacagta ttagtaggac 
    1861 ctacacctgt caatataatt ggaagaaatt tgttgactca gattgggtgc actttaaatt 
    1921 ttccaattag tcctattgat actgtaccag taagattaaa gccagggatg gatggcccaa 
    1981 aagttaaaca atggccatta acagaagaaa aaataaaagc actaacagaa atttgtacag 
    2041 atatggaaaa ggaaggaaaa atttcaagaa ttgggcctga aaatccatac aatactccaa 
    2101 tatttgctat aaagaaaaaa gacagtacta agtggagaaa attagtagat ttcagagaac 
    2161 ttaataaaag aactcaagac ttctgggaag ttcaactagg aataccacat cctgcaggac 
    2221 taaaaaagaa aaaatcagta acagtactgg atgtgggtga tgcatatttc tcagttccat 
    2281 tatatgaaga ctttagaaaa tataccgcat tcaccatacc tagtataaac aatgagacac 
    2341 caggaattag atatcaatac aatgtgctcc cacaaggatg gaaaggatca ccggcaatat 
    2401 tccaaagtag tatgacaaaa atcttagaac cttttagaaa acaaaatcca gaaatggtta 
    2461 tctatcaata catggatgat ttgtatgtag gatctgactt agacataggg cagcatcgaa 
    2521 taaaaataga ggaattaagg gaccacctat tgaagtgggg atttaccaca ccagacaaaa 
    2581 agcatcagaa agaacctccc tttctttgga tgggttatga gctccatcct aataaatgga 
    2641 cagtacagcc tataaaacta ccagaaaaag aaagctggac tgtcaatgat atacagaagt 
    2701 tagtgggaaa attaaattgg gcaagccaga tttatccagg aattagagtg aaacaattat 
    2761 gcaaatgtct taggggagcc aaagcactga cagaagtagt accactgaca gaagaagcag 
    2821 aattagaact ggcagaaaac agggaaattc taaaagaacc agtacatgga gtgtattatg 
    2881 acccatcaaa agacttgata gcagaaatac agaaacaagg gccagaccaa tggacatatc 
    2941 aaatatatca agaacaatat aaaaatctga aaacaggaaa gtatgcaaaa acgaggggta 
    3001 cccacactaa tgatgtaaag caattaacag aggcagtgca aaaaatagcc caagaatgta 
    3061 tagtaatatg gggaaagact cctaaattta gactacccat acaaaaggaa acatgggaca 
    3121 catggtggac agagtattgg caggccacct ggattcctga gtgggagttt gtcaataccc 
    3181 ctcctttagt taaattatgg taccagttgg agaaggaacc catagtagga gcagaaactt 
    3241 tctatgtaga tggggcagct aatagagaga ctaaatcagg aaaagcagga tatgttactg 
    3301 acagaggaag acagaaagtt gtccctctaa ctgacacaac aaatcagaag actgaattgc 
    3361 aagccattaa tctagctttg caggattcag gattagaagt aaacatagtg acagattcac 
    3421 aatatgcatt aggaatcatt caagcacaac cagataggag tgaatcagag ttagtcaatc 
    3481 agatcataga acagttaata aaaaaggaaa aggtatacct atcatgggta ccagcacaca 
    3541 aagggattgg aggaaatgac caagtagata aattagttag taatggaatc agaaaaatac 
    3601 tattcttgga tggaatagat aaggctcaag acgaacatga gaaataccac agcaattgga 
    3661 gagcaatggc tagtgacttt aacctgccac ctgtggtagc aaaagaaata gtagctagct 
    3721 gtgataaatg tcagctaaaa ggagaagcct tgcatggaca agtggactgc agtccaggaa 
    3781 tatggcaatt agactgtaca catttagaag gaaaagttat cctagtagca gtccatgtag 
    3841 ccagtggcta tctagaagca gaagttattc cagcagaaac agggcaggaa acagcctact 
    3901 ttctcttaaa attagcagga agatggccag taaaagtagt acatacagac aatggcagca 
    3961 atttcaccag tgctgcagtt aaggctgcct gttggtgggc aggtatcaag caggaatttg 
    4021 gaattcccta taatccccaa agtcaaggag tagtagaatc tatgaataaa gaattaaaga 
    4081 aaattatagg acaggtaaga gatcaagctg aacagcttaa aacagcagta caaatggcag 
    4141 tattcatcca caattttaaa agaaaagggg ggattggggg gtacagtgca ggggaaagaa 
    4201 taatagacat aatagcaaca gacatacaaa cgaaagaatt acaaaaacaa atcataaaaa 
    4261 ttcaaaattt tcgggtttat tacagggaca gcagagatcc aatttggaaa ggaccagcaa 
    4321 agcttctctg gaaaggtgaa ggggcagtag taatacaaga caatagtgaa ataaaggtag 
    4381 taccaagaag aaaagtaaag atcattaggg at
//
last modified: Tue May 31 10:56 2022


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