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LOCUS JN251888 2991 bp RNA linear VRL 12-SEP-2011
DEFINITION HIV-1 isolate s1.11.3 from Sweden rev protein (rev) and tat protein
(tat) genes, partial cds; vpu protein (vpu) and envelope
glycoprotein (env) genes, complete cds; and nef protein (nef) gene,
partial cds
ACCESSION JN251888
VERSION JN251888.1 GI:346312801
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 2991)
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 2991)
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 s1.11.3 Amplification
strategy limiting dilution PCR Culture method uncultured Drug naive
yes Patient health status asymptomatic Patient sex M Patient
progression LTNP Sample timepoint 11 Sample Date 12-Oct-98
##HIVDataBaseData-END##
FEATURES Location/Qualifiers
source 1..2991
/organism="Human immunodeficiency virus 1"
/mol_type="genomic RNA"
/isolate="s1.11.3"
/host="Homo sapiens"
/db_xref="taxon:11676"
/country="Sweden"
/collection_date="12-Oct-1998"
/note="subtype: B"
gene <1..2651
/gene="rev"
CDS join(<1..58,2368..2651)
/gene="rev"
/codon_start="1"
/transl_table="1"
/product="rev protein"
/protein_id="AEO22552.1"
/db_xref="GI:346312803"
/translation="DSDEELLKAVRLIKFLYQSNPLPSPEGTRQARRNRRRRWREKQR
QIRTISERILSTYLGRSAEPVPLQLPPLERLTLDCNEDCGTSGTQGVGSPQILVESPA
VLETGTKEECC"
gene <1..2458
/gene="tat"
CDS join(<1..58,2368..2458)
/gene="tat"
/codon_start="3"
/transl_table="1"
/product="tat protein"
/protein_id="AEO22551.1"
/db_xref="GI:346312802"
/translation="QRRRAPQGSPTHQVSLPKQPTSQPRGDPTGPKESKKKVERETET
DPDD"
gene 75..320
/gene="vpu"
CDS 75..320
/gene="vpu"
/codon_start="1"
/transl_table="1"
/product="vpu protein"
/protein_id="AEO22553.1"
/db_xref="GI:346312804"
/translation="MQSLHIVAIVALVVAAIIAIVVWTIVFIEYRKILRQRKIDRLIE
RISERAEDSGNESEGDQEELSALVGMGHHAPWNIDDL"
gene 238..2784
/gene="env"
CDS 238..2784
/gene="env"
/codon_start="1"
/transl_table="1"
/product="envelope glycoprotein"
/protein_id="AEO22554.1"
/db_xref="GI:346312805"
/translation="MKVREIRKSYQHWWGWGIMLLGILMICSTADKLWVTIYYGVPVW
KEATTTLFCASDAKSYDTEVHNVWATHACVPTDPNPQEVELKNVTENFNMWKNNMVEQ
MHEDIISLWDQSLKPCVKLTPLCVTLNCTDLRNATNATNSSGGTMEGGEMKNCSFNVT
TNIRDKKKNEYALFYKLDVIPIDNDNTSYRLINCDTSVITQACPKVSFEPIPIHYCTP
AGFAILKCNDTKFNGSGPCKNVSTVQCTHGIRPTVSTQLLLNGSLAEEEVVIRSENFT
NNVKIIIVQLKESVDITCIRPNNNTRRGIHIGPGRTLYATGGIIGDIRQAHCNISGGQ
WNNTLQQIVIKLREQFGNKTIAFDQSSGGDPEVVMHMFNCGGEFFYCNSSQLFDSTWP
ANGTRNESIEENITLPCRIKQIINMWQEVGKAMYAPPIRGPIKCLSKITGLILTRDGG
DSTNQSTEIFRPGGGDMRDNWRSELYKYKVVKIEPLGVAPTKAKRRVVQREKRSVTLG
AMFLGFLGAAGSTMGAASMALTVQARQLLSGIVQQQNNLLKAIEAQQHLLQLTVWGIK
QLQARVLAVERYLKDQQLLGIWGCSGKLICTTAVPWNTSWSNKSLSEIWNNMTWMEWE
REIDNYTSLIYTLIEESQNQQEKNEQELLELDKWASLWNWFDITKWLWYIKIFIMIVG
GLVGLRIVFAVLSIVNRVRQGYSPLSFQTHFPAPRGPDRPEGIEEEGGERNRDRSGRL
VNGFLALIWDDLRSLCLFSYHRLRDLLLIATRIVELLGRRGWEALKYWWNLLQYWRQE
LKKSAVSLLNVTAIAVAEGTDRIIEVLQRACRAILHIPRRIRQGLERVLQ"
gene 2786..>2991
/gene="nef"
CDS 2786..>2991
/gene="nef"
/codon_start="1"
/transl_table="1"
/product="nef protein"
/protein_id="AEO22555.1"
/db_xref="GI:346312806"
/translation="MGGKWSKSSPVGWPAIRERMKRAEPAADGVGAASRDLERHGALT
SSNTVHNNAACAWLEAQEEEEVGFP"
BASE COUNT 1048 a 496 c 734 g 713 t
ORIGIN
1 gacagcgacg aagagctcct caaggcagtc cgactcatca agtttctcta ccaaagcagt
61 aagtagtaca tgtaatgcaa tctttacata tagtagcaat agtagcatta gtagtagcag
121 caataatagc aatagtagtg tggaccatag tattcataga atatagaaaa atattaagac
181 aaagaaaaat agacaggtta attgaaagaa taagtgaaag agcagaagac agtggcaatg
241 aaagtgaggg agatcaggaa gagctatcag cactggtggg gatggggcat catgctcctt
301 ggaatattga tgatttgtag tactgcagac aaattgtggg taacaatcta ttatggggta
361 cctgtgtgga aagaagcaac taccactcta ttttgtgcat cagatgctaa atcatatgat
421 acagaggtac ataatgtctg ggctacacat gcctgtgtac ccacagaccc caacccacaa
481 gaagtagaat tgaaaaatgt gacagaaaat tttaacatgt ggaaaaataa catggtagaa
541 caaatgcatg aggatataat cagtttatgg gatcaaagct taaagccatg tgtaaaatta
601 accccactct gtgttacttt aaattgcact gatttgagaa atgctactaa tgccactaat
661 agtagcgggg gaacgatgga gggaggagaa atgaaaaact gctctttcaa tgtcaccaca
721 aacataagag acaagaagaa gaatgaatat gcactttttt ataaacttga tgtaatacca
781 atagataatg ataatactag ctataggttg ataaattgtg acacctcagt cattacacag
841 gcctgtccaa aggtatcctt tgaaccaatt cccatacatt attgtacccc agctggtttt
901 gcgattctaa agtgtaatga tacgaagttc aatggatcag gaccatgtaa aaatgtcagc
961 acagtacagt gtacccatgg aattaggcca acagtgtcaa ctcaactgtt attaaatggc
1021 agtctagcag aagaagaggt agtaattagg tctgaaaatt tcacgaataa tgttaaaatc
1081 ataatagtgc agctgaagga atctgtagac attacttgta taaggcccaa caacaataca
1141 agaagaggta tacatatagg accagggaga acactttatg caacaggagg aataatagga
1201 gatataagac aagcacattg taacattagt ggaggacaat ggaataatac tttacaacag
1261 atagttataa aattaagaga acaatttggg aataaaacaa tagcctttga tcaatcctca
1321 ggaggggacc cagaagttgt aatgcacatg tttaattgtg ggggggaatt tttctactgt
1381 aattcatcac aactgtttga tagtacttgg ccggctaatg gtactagaaa tgagagcatt
1441 gaagaaaata tcacactccc atgtagaata aaacaaatta taaacatgtg gcaggaggta
1501 ggaaaagcaa tgtatgcccc tcccatcaga ggaccaatta agtgtttatc aaagattaca
1561 gggctgatat taacaagaga tggtggtgat agcacgaacc aaagcacaga gatcttcaga
1621 ccgggaggag gagatatgag ggacaattgg agaagtgaat tgtataaata caaagtagta
1681 aaaattgaac cattaggggt agcacccacc aaggcaaaga gacgagtggt gcagagagaa
1741 aaaagatcag tgacactagg agctatgttc cttggattct tgggagcagc aggaagcact
1801 atgggcgcag cgtcaatggc gctgacggta caggctagac aattattgtc gggtatagtg
1861 caacagcaga acaatttgct gaaggctatt gaggcgcaac aacatctgtt gcaactcaca
1921 gtctggggca tcaaacagct ccaggcaaga gtcctggctg tggaaagata cctaaaggat
1981 caacagctcc tgggaatttg gggttgctct ggaaaactca tttgcaccac tgctgtgcct
2041 tggaatacta gttggagtaa taaatctttg agtgagattt ggaacaacat gacctggatg
2101 gagtgggaaa gagaaattga caattacaca agcttaatat acactttaat tgaagaatcg
2161 cagaaccaac aagaaaagaa tgaacaagaa ttattggaat tagataaatg ggcaagtttg
2221 tggaattggt ttgacataac aaaatggctg tggtatataa aaatattcat aatgatagta
2281 ggaggcttgg taggtttaag aatagttttt gctgtacttt ctatagtgaa tagagttagg
2341 cagggatact caccattatc atttcagacc cacttcccag ccccgagggg acccgacagg
2401 cccgaaggaa tcgaagaaga aggtggagag agaaacagag acagatccgg acgattagtg
2461 aacggattct tagcacttat ctgggacgat ctgcggagcc tgtgcctctt cagctaccac
2521 cgcttgagag acttactctt gattgcaacg aggattgtgg aacttctggg acgcaggggg
2581 tgggaagccc tcaaatattg gtggaatctc ctgcagtatt ggagacagga actaaagaag
2641 agtgctgtta gcttgctcaa tgtcacagcc atagcagtag ctgaggggac agataggatt
2701 atagaagtat tacaaagagc ttgtagagct attctccaca tacctagaag aataagacag
2761 ggcttggaaa gggttttgca ataagatggg tggcaagtgg tcaaaaagta gtccagttgg
2821 atggcctgct ataagggaaa gaatgaaacg agctgagcca gcagcagatg gggtgggagc
2881 agcatctcga gatctggaaa gacatggagc actcacaagt agcaatacag tacataataa
2941 tgctgcatgt gcctggctag aagcacaaga ggaggaggag gtgggttttc c
//
last modified: Tue May 31 10:56 2022