Typing tool
|
Complete norovirus genomes
KF944259 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..825 ORF2: 806..2428 ORF3: 2428..3234LOCUS KF944259 3302 bp RNA linear VRL 01-AUG-2019 DEFINITION Norovirus GII isolate Hu/GII.Pe-GII.4/RUS/Novosibirsk/Nsk-N4957/2012 nonstructural polyprotein, RdRp region, (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds. ACCESSION KF944259 VERSION KF944259.3 KEYWORDS . SOURCE Norovirus GII ORGANISM Norovirus GII Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 (bases 1 to 3302) AUTHORS Zhirakovskaia,E.V., Tikunov,A.Y., Bodnev,S.A., Klemesheva,V.V., Netesov,S.V. and Tikunova,N.V. TITLE Molecular epidemiology of noroviruses associated with sporadic gastroenteritis in children in Novosibirsk, Russia, 2003-2012 JOURNAL J. Med. Virol. 87 (5), 740-753 (2015) PUBMED 25693507 REFERENCE 2 (bases 1 to 3302) AUTHORS Zhirakovskaia,E., Tikunov,A., Tymentsev,A., Sokolov,S., Sedelnikova,D. and Tikunova,N. TITLE Changing pattern of prevalence and genetic diversity of rotavirus, norovirus, astrovirus, and bocavirus associated with childhood diarrhea in Asian Russia, 2009-2012 JOURNAL Infect. Genet. Evol. 67, 167-182 (2019) PUBMED 30414977 REFERENCE 3 (bases 1 to 3302) AUTHORS Zhirakovskaya,E. and Tikunova,N. TITLE Direct Submission JOURNAL Submitted (07-DEC-2013) Siberian Branch of Russian Academy of Sciences, Institute of Chemical Biology and Fundamental Medicine, Lavrentiev Ave. 8, Novosibirsk 630090, Russia REFERENCE 4 (bases 1 to 3302) AUTHORS Zhirakovskaya,E. and Tikunova,N. TITLE Direct Submission JOURNAL Submitted (19-DEC-2016) Siberian Branch of the Russian Academy of Sciences, Institute of Chemical Biology and Fundamental Medicine, 8 Lavrentiev Avenue, Novosibirsk 630090, Russia REMARK Sequence update by submitter COMMENT On May 8, 2019 this sequence version replaced KF944259.2. ##Assembly-Data-START## Sequencing Technology :: Sanger dideoxy sequencing ##Assembly-Data-END## FEATURES Location/Qualifiers source 1..3302 /organism="Norovirus GII" /mol_type="genomic RNA" /isolate="Hu/GII.Pe-GII.4/RUS/Novosibirsk/Nsk-N4957/2012" /isolation_source="feces" /host="Homo sapiens; sex: M; age: 10 months" /db_xref="taxon:122929" /country="Russia: Novosibirsk" /collection_date="06-Oct-2012" /note="genotype: GII.Pe/GII.4 variant Sydney_2012" gene <1..825 /gene="ORF1" CDS <1..825 /gene="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="AIS24705.2" /translation="YHYDADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLL SPSVMDVGDFQISISEGLPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLF SFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVT RDPAGWFGKLEQSSILRQLYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAF YSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" mat_peptide <1..822 /gene="ORF1" /product="RdRp" gene 806..2428 /gene="ORF2" CDS 806..2428 /gene="ORF2" /note="major capsid protein" /codon_start=1 /product="VP1" /protein_id="QCO68837.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIIAAVPPNFPTEGLGPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSRNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTDHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRVV" gene 2428..3234 /gene="ORF3" CDS 2428..3234 /gene="ORF3" /note="minor capsid protein" /codon_start=1 /product="VP2" /protein_id="QCO68838.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPPGALPGRANLRDAVPARGPSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPSSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" 3'UTR 3235..3302 ORIGIN 1 tatcactatg atgcagatta ttcccggtgg gactcaacac aacaaaggga tgtgctagca 61 gcagcactag aaatcatggt taagttctct ccagaaccac atctggccca gatagttgca 121 gaagacctcc tttcccctag cgtaatggat gtaggtgact ttcaaatatc aataagtgag 181 ggtctcccct ctggggtacc ttgtacctcc cagtggaatt ccatcgccca ctggctcctc 241 actctttgtg cactctctga agtcacggac ctgtcccctg acatcatcca ggccaactcc 301 cttttctcct tctatggtga tgatgagatt gtaagcacag acataaaatt ggacccagag 361 aagctgacag caaaactcaa ggagtacggg ctgaaaccaa cccgccccga taaaactgaa 421 ggaccccttg ttatctctga agacctggat ggcctgacat tcctccggag aactgtgacc 481 cgtgatccag ctggctggtt tggaaaattg gaacaaagtt caattctcag gcaactgtac 541 tggaccaggg gtcccaacca tgaagatcca tttgaaacaa tgataccaca ctcccaaaga 601 cccatacaat tgatgtcctt gctaggcgag gctgcactcc acggcccggc attttatagc 661 aaaattagca agttagtcat tgcagagttg aaggaaggtg gcatggattt ttacgtgccc 721 agacaagagc caatgttcag atggatgaga ttctcagacc tgagcacgtg ggagggcgat 781 cgcaatctgg ctcccagttt tgtgaatgaa gatggcgtcg agtgacgcca acccatctga 841 tgggtccgca gccaacctcg taccagaggt caacaatgag gttatggctc tggagcccgt 901 tgttggtgcc gctattgcgg cacctgtagc gggccaacaa aatgtaattg acccctggat 961 tagaaataat tttgtacaag cccctggtgg agagtttaca gtatccccta gaaacgctcc 1021 aggtgaaata ctatggagcg cgcccttagg ccctgatcta aatccctacc tatcccattt 1081 ggccagaatg tacaatggtt atgcaggtgg ttttgaagtg caggtaattc tcgcggggaa 1141 cgcgttcacc gccgggaaga tcataattgc agcagtccca ccaaattttc caactgaagg 1201 cttaggcccc agccaggtca ctatgttccc ccatataata gtagatgtta gacaactaga 1261 acctgtgctg attcccttac ccgatgtcag gaataatttc tatcattaca atcaatcaaa 1321 tgactccact attaagttga tagcaatgtt gtatacacca cttagggcta ataatgctgg 1381 ggacgatgtc ttcacagttt cttgccgagt tctcacgaga ccatcccccg attttgattt 1441 catattttta gtgccaccca cagttgagtc aagaactaaa ccattctctg tcccagtttt 1501 aactgttgag gagatgacca attcaagatt ccccattcct ttggaaaagt tgttcacggg 1561 ccccagcagt gcctttgttg ttcaaccaca aaacggcagg tgcacgactg atggcgtgct 1621 cctaggcacc acccaactgt ctcctgtcaa catctgcacc ttcagagggg atgtcaccca 1681 catcacaggt agtcgtaact acacaatgaa tttggcttct caaaattgga acaattatga 1741 cccaacagaa gaaatcccag cccctctagg aactccagat tttgtgggga agattcaagg 1801 catgctcacc caaaccacaa ggacagatgg ttcaacacgc ggccacaaag ctacagtgta 1861 cactgggagc gccgactttg ctccaaaact gggtagagtt caatttgaaa ctgacacaga 1921 ccatgatttt gaagctaacc aaaacacgaa gttcacccca gtcggtgtca tccaagatgg 1981 tagcaccacc caccgaaatg aaccccaaca gtgggtgctc ccaagttact caggcagaaa 2041 tactcataat gtgcatctgg cccccgctgt agcccccact tttccgggtg agcaacttct 2101 cttcttcaga tccaccatgc ccggatgcag cgggtaccct aacatggatt tggactgtct 2161 gctcccccag gaatgggtgc agtacttcta ccaagaggca gccccagcac aatctgatgt 2221 ggctctacta agatttgtga atccagacac aggtagggtt ttgtttgagt gtaagcttca 2281 caaatcaggc tatgttacag tggctcacac tggccaacat gatttggtta tcccccccaa 2341 tggttacttt aggtttgatt cctgggtcaa ccagttctac acgcttgccc ccatgggaaa 2401 tggaacgggg cgtagacgtg tagtataatg gctggagctt tctttgctgg attggcatct 2461 gatgtccttg gctctggact tggttccctt atcaacgctg gggctggggc catcaaccaa 2521 aaagttgagt ttgaaaataa cagaaaattg caacaagcat ccttccaatt tagcagcaat 2581 ctgcaacagg cttcctttca acatgacaaa gagatgctcc aagcacaaat tgaggccacc 2641 aaaaagctac aacaggaaat gatgaaagtt aagcaggcaa tgctcctaga gggtgggttc 2701 tctgagacag atgcagcccg cggggcaatc aacgccccca tgacaaaagc tttggactgg 2761 agcgggacaa ggtactgggc tcccgatgct aggaccacaa catacaatgc aggccgcttt 2821 tccacccctc aaccaccggg ggcactgcca ggaagagcta atcttaggga tgctgtccct 2881 gctcgaggtc cctccagcaa atcttctaac tcttctactg ctacttctgt gtactcaaat 2941 caaactactt caacgagact tggttctaca gctggttctg gaaccagtgt ctcgagcctc 3001 ccatcaactg caaggactag gagctgggtt gaggatcaaa gtaggaattt gtcacctttc 3061 atgagggggg cccacaacat atcgtttgtc accccatcat ctagcagatc ctctagccaa 3121 ggcacagtct caaccgtgcc taaagagatt ttggactcct ggactggcgc tttcaacacg 3181 cgcaggcagc ctctcttcgc tcacattcgt aagcgagggg agtcacgggt gtaatgtgaa 3241 aagacaaaat tgattatctt tctttttctt tagtgtcttt taaaaaaaaa aaaaaaaaaa 3301 aa //