Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| KF944259 | GII.4 Sydney | |
|
|---|---|---|---|
| GII.P31 |
ORF1: 1..825
ORF2: 806..2428
ORF3: 2428..3234
LOCUS 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; Norovirus norwalkense.
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"
/geo_loc_name="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
//