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LOCUS JX202816 4412 bp RNA linear VRL 16-JAN-2013
DEFINITION HIV-1 isolate 0B190049_5_J8 from Uganda nonfunctional gag protein
(gag) gene, complete sequence; and pol protein (pol) gene, partial
cds
ACCESSION JX202816
VERSION JX202816.1 GI:441442402
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_J8"
/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="AGC32070.1"
/db_xref="GI:441442403"
/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