View NCBI entry Download GenBank file Graphics View Download GFF3 File
LOCUS JN251852 3012 bp RNA linear VRL 12-SEP-2011
DEFINITION HIV-1 isolate s5.2.5 from Sweden rev protein (rev) and tat protein
(tat) genes, partial cds; vpu protein (vpu) gene, complete cds;
nonfunctional env protein (env) gene, complete sequence; and nef
protein (nef) gene, partial cds
ACCESSION JN251852
VERSION JN251852.1 GI:346312599
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 3012)
Show all sequences for reference 1
AUTHORS Skar,H., Gutenkunst,R.N., Wilbe Ramsay,K., Alaeus,A., Albert,J. and
Leitner,T.
TITLE Daily Sampling of an HIV-1 Patient with Slowly Progressing Disease
Displays Persistence of Multiple env Subpopulations Consistent with
Neutrality
JOURNAL PLoS ONE 6 (8), E21747 (2011)
PUBMED 21829600
REFERENCE 2 (bases 1 to 3012)
Show all sequences for reference 2
AUTHORS Leitner,T.
TITLE Direct Submission
JOURNAL Submitted (13-JUL-2011) Theoretical Biology and Biophysics, Los
Alamos National Laboratory, MS K710, Los Alamos, NM 87545, 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## Sequence Name s5.2.5 Amplification
strategy limiting dilution PCR Culture method uncultured Drug naive
yes Patient health status asymptomatic Patient sex M Patient
progression LTNP Sample timepoint 2 Sample Date 3-Oct-98
##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..3012
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="s5.2.5"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="Sweden"
/collection_date="03-Oct-1998"
/note="subtype: B"
gene <1..2662
/gene="rev"
CDS join(<1..58,2379..2662)
/gene="rev"
/codon_start="1"
/transl_table="1"
/product="rev protein"
/protein_id="AEO22386.1"
/db_xref="GI:346312601"
/translation="DSDEELLKAVRLIKFLYQSNPLPSPEGTRQARRNRRRRWRERQR
QIRTISERILNTYLGRSAEPVPLQLPPLERLTLDCNEDCETSGTQGVGSPQILVESPA
VLETGTKEECC"
gene <1..2469
/gene="tat"
CDS join(<1..58,2379..2469)
/gene="tat"
/codon_start="3"
/transl_table="1"
/product="tat protein"
/protein_id="AEO22385.1"
/db_xref="GI:346312600"
/translation="QRRRAPQGSPTHQVSLPKQPTSQPRGDPTGPKESKKKVERETET
DPDD"
gene 75..320
/gene="vpu"
CDS 75..320
/gene="vpu"
/codon_start="1"
/transl_table="1"
/product="vpu protein"
/protein_id="AEO22387.1"
/db_xref="GI:346312602"
/translation="MQSLHIVAIVALVVAAIIAIVVWTIVLIEYRKILRQRKIDRLIE
RISERAEDSGNESEGDQEELSALVGMGHHAPWNIDDL"
gene 238..2795
/gene="env"
misc_feature 238..2795
/gene="env"
/note="nonfunctional env protein due to mutation"
gene 2797..>3012
/gene="nef"
CDS 2797..>3012
/gene="nef"
/codon_start="1"
/transl_table="1"
/product="nef protein"
/protein_id="AEO22388.1"
/db_xref="GI:346312603"
/translation="MGGQWSKSSLVGWPAIRERMKRAEPAADGVGAASLDLERHGALT
SSNTVHNNAACAWLEAQEEEEVGFPVRP"
BASE COUNT 1068 a 501 c 720 g 723 t
ORIGIN
1 gacagcgacg aagagctcct caaggcagtc cgactcatca agtttctcta ccaaagcagt
61 aagtagtaca tgtaatgcaa tctttacata tagtagcaat agtagcatta gtagtagcag
121 caataatagc aatagtagtg tggaccatag tactcataga atatagaaaa atattaagac
181 aaagaaaaat agacaggtta attgaaagaa taagtgaaag agcagaagac agtggcaatg
241 aaagtgaggg agatcaggaa gagctgtcag cacttgtggg gatggggcat catgctcctt
301 ggaatattga tgatctgtag tactgcagac aaattgtggg tcacagttta ttatggggta
361 cctgtgtgga aagaagcaac taccactcta ttttgtgcat cagatgctaa atcatatgat
421 acagaagtac ataatgtctg ggctacacat gcctgtgtac ccacagaccc caacccacaa
481 gaagtagtat tggaaaatgt gacagaaaat tttaacatgt ggaaaaataa catggtagaa
541 caaatgcatg aggatataat cagtttatgg gatcaaagct taaagccatg tgtaaaatta
601 accccactct gtgttacttt aaattgcact gatttgagaa atgctactaa tgccactaat
661 agtagcgggg gaacgatgga gggaggagaa atgaaaaatt gttctttcaa tatcaccaca
721 aacataagag acaagacgaa gaagaaaaac gaatatgcac ttttttataa acttgatgta
781 ataccaatag ataatgataa tactaatact agctataggt tgataaattg taacacctca
841 gtcattacac aggcctgtcc aaaggtatcc tttgaaccaa ttcccataca ttattgtgcc
901 ccggctggtt ttgcgattat aaagtgtaat gataagaagt tcaatggatc aggaccatgt
961 aaaaatgtca gcacagtaca atgtacacat ggaattaggc caacagtgtc aactcaactg
1021 ttattaaatg gcagtctagc agaagaagag gtagtaatta ggtctgaaaa tttcacgaat
1081 aatgctaaaa tcataatagt acagctgaag aaacctgtag aaattatttg tgcaaggccc
1141 aacaacaata caagaaaagg gatacatatg ggactaggga aacactttat gcaacaggag
1201 gaataatagg agatataaga caagcacatt gtaacattag taaaacagat tgaaatgata
1261 ctttacaaca gatagttata aaattaagag aacaatttaa gaataaaaca atagtctttg
1321 atcaatcctc aggaggggac ccagaagttg taatgcacat gtttaattgt gggggggaat
1381 ttttctactg tgaatcatca ctactgttta ataatacttg ggttaatagt actagaaatg
1441 atagtactaa agaaaatagc acacttacac tcccatgtag aataaaacaa attataaaca
1501 tgtggcagga ggtaggaaag gcaatgtatg cccctcccat cagaggacaa attaagtgtt
1561 catcaaagat tacagggctg atattaacaa gagatggtgg taatagcccg aaccaaagca
1621 cagagatctt cagaccggga ggaggagata tgagggacaa ttggagaagt gaactatata
1681 aatacaaagt agtaaaaatt gaaccattag gggtagcacc caccaaggca aagagacgag
1741 tggtgcagag agaaaaaaga acagtcatag gagctgtgtt ccttgggttc ttgggagcag
1801 caggaagcac tatgggcgca gcgtcaatga cgctgacggt acaagctaga caattattgt
1861 ctggtatagt gcaacagcag aacaatttgc tgaaggctat tgaagcgcaa caacatctgt
1921 tgcaactcac agtctggggc atcaagcagc tccaggcaag agtcctggct gtggaaagat
1981 acctaaagga tcaacagctc ctggggattt ggggttgctc tggaaaactc atttgcacca
2041 ctgctgtgcc ttggaatact agttggagta ataaatctct gaatgagatt tgggacaaca
2101 tgacctggat ggagtgggaa agagaaattc acaattacac aagcttaata tacactttaa
2161 ttgaagaatc gcaaacccac caagaaaaga atgaacaaga attattggaa ttagataagt
2221 gggcaagttt gtggaattgg tttgacataa caaaatggct gtggtatata aaaatattca
2281 taatgatagt aggaggcttg gtaggtttaa gaatagtttt tgctgtactt tctatagtga
2341 atagagttag gcagggatac tcaccattat catttcagac ccacttccca gccccgaggg
2401 gacccgacag gcccgaagga atcgaagaag aaggtggaga gagagacaga gacagatccg
2461 gacgattagt gaacggattc ttaacactta tctgggacga tctgcggagc ctgtgcctct
2521 tcagctacca ccgcttgaga gacttactct tgattgtaac gaagattgtg aaacttctgg
2581 gacgcagggg gtgggaagcc ctcaaatatt ggtggaatct cctgcagtat tggagacagg
2641 aactaaagaa gagtgctgtt agcttgttca atgccatagc catagcagta gctgagggga
2701 cagataggat tatagaagta ttacaaagag cttttaaagc tcttatccac atacctagaa
2761 gaataagaca gggcttggaa aggattttgc aataagatgg gtggccagtg gtcaaaaagt
2821 agtctggttg gatggcctgc tataagggaa agaatgaaac gagctgagcc agcagcagat
2881 ggggtggggg cagcatctct agacctggaa agacatggag cactcacaag tagcaataca
2941 gtacataata atgctgcatg tgcctggcta gaagcacaag aggaggagga ggtgggtttt
3001 ccagtcagac ct
//
last modified: Tue May 31 10:56 2022