Typing tool
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Typing tool
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Complete norovirus genomes
| LC209464 | GII.2 | |
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| GII.P2 |
ORF1: 1..5099
ORF2: 5080..6708
ORF3: 6708..7487
LOCUS LC209464 7531 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Hokkaido-13 RNA, nearly
complete genome.
ACCESSION LC209464
VERSION LC209464.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Hokkaido-13
ORGANISM Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Hokkaido-13
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Mizukoshi,F., Nagasawa,K., Doan,Y.H., Haga,K., Yoshizumi,S.,
Ueki,Y., Shinohara,M., Ishikawa,M., Sakon,N., Shigemoto,N.,
Okamoto-Nakagawa,R., Ochi,A., Murakami,K., Ryo,A., Suzuki,Y.,
Katayama,K. and Kimura,H.
TITLE Molecular Evolution of the RNA-Dependent RNA Polymerase and Capsid
Genes of Human Norovirus Genotype GII.2 in Japan during 2004-2015
JOURNAL Front Microbiol 8, 705 (2017)
PUBMED 28487679
REMARK DOI:10.3389/fmicb.2017.00705
Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7531)
AUTHORS Mizukoshi,F., Matsushima,Y., Ishikawa,M. and Kimura,H.
TITLE Direct Submission
JOURNAL Submitted (12-JAN-2017) Contact:Mariko Ishikawa Kawasaki City
Institute for Public Health, Division of Virology; Tonomachi
3-25-13, Kawasaki-ku, Kawasaki, Kanagawa 210-0821, Japan
FEATURES Location/Qualifiers
source 1..7531
/organism="Norovirus
Hu/GII/JP/2004/GII.P2_GII.2/Hokkaido-13"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2004/GII.P2_GII.2/Hokkaido-13"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934290"
/country="Japan: Hokkaido"
/collection_date="2004"
/note="genotype: GII.P2_GII.2"
gene <1..5099
/gene="POL"
CDS <1..5099
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BBB87010.1"
/translation="KMASNDASAAAAVNSNNDNTKSSSDGMFNNVAVTLKRALGARSK
QPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPE
ANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISI
AKVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSW
LSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKL
KPLNILNILASCDWTFASIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDI
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKELGAYGLEILKLVMKWFFPK
KDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELA
KKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKA
KRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARAS
GLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMD
ELKKAIKNIIIRKCQIVYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLRC
ARIRYYVKCVQEAIYSLLQIAGTVFVTSRIISRMNIQNLWSRPLTEDADEATMKEGCP
KPREEEEFVVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGK
YSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVT
GSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGT
VATILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVIGGPSLQQVMRDQLKPFTEPR
GKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWN
GESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLA
TMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDS
TQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLRE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPN
HEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSLVNEDGVE"
gene 5080..6708
/gene="VP1"
CDS 5080..6708
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87011.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTPQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6708..7487
/gene="VP2"
CDS 6708..7487
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87012.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 tgaagatggc gtctaacgac gcttctgctg ccgctgctgt taacagcaac aacgacaaca
61 caaaatcttc aagtgacgga atgtttaaca acgtggccgt cacccttaaa cgagccctcg
121 gggcccggtc caaacagccg gccccgaggg aaaaaccccc aagaccccct agaccaccaa
181 caccagaact aatcaaaaga attccccccc caccacccaa tgatggggac gaaccaaccg
241 tgatgtttag cactgtaggt ggtgtgtctg gcctacctga gctcacaaca gtcggtcaac
301 cacctgaagc caacacggcc tttagtgtgc ctcccctcag ccaaagggaa aacagggacg
361 ctaaggaacc gctaactgga actattctgg aaatgtggga tggggagatc tatcattatg
421 gactgtatgt ggaaagaggg cttgtgttag gcgtgcacaa gccgccagct gccatcagca
481 tagccaaagt ggaattaacg cccctctcac tgtattggag acctgtgtac acgcctcagt
541 accttatatc ccctgacacc ttgaggaaac tccatggtga attgtttccc tatacagcct
601 ttgaaaacaa ctgttatgcc ttctgctgtt gggttttgga tcttaacgat tcatggctaa
661 gcaggaggat gattagtagg accactggct ttttcaggcc ctaccaagag tggaacagga
721 agccccttcc aactatggat gactcaaaat tgaagaaggt cgcaaacatc gttttgtgtg
781 cattgtcatc attgttcact agacccatca aggatataat tggtaaactt aaacccctca
841 acatcctaaa cattctggcc tcatgcgatt ggactttcgc tagcatagta gagtcactaa
901 tcctcttggc tgaactcttt gatgtgttct ggacaccccc agatgtgtct gcaatgatcg
961 cacccctcct cggtgactac gagctacaag gccccgaaga catcgctgtg gagctcgtgc
1021 ccgttgtgat gggtgggata ggtctggtgt tgggattcac caaagagaaa ataggtaaga
1081 tgctctcctc tgcagcgtca accctgaggg catgcaaaga acttggagcc tatggattgg
1141 agatcttgaa actagtcatg aaatggtttt tcccaaagaa ggatgaggcc aacgaactgg
1201 ctatggttag agccattgaa gacgctgtat tagacctgga ggccattgag aacaaccata
1261 tgaccactct attgaaagac aagaacagcc ttgcagccta catgaagacc ttggacatgg
1321 aagaggaaaa agctaggaag ttatccacca aatcagcctc ccctgacatt gtgggcacca
1381 taaacgccct gctggctagg atcgccgccg cgcgttccct agttcatagg gccaaggagg
1441 agctctctag cagaccaaga ccggtcgttc tgatgatctc tggcaaacca gggataggaa
1501 agacccactt ggccagagaa ctggcaaaga aaattgcctc gacgctcaca ggagatcaga
1561 gggtgggcct catcccacgg aatggagttg accactggga cgcctacaaa ggtgagagag
1621 tggtgctctg ggatgactac gggatgagca accccatcca cgatgcgctg aggttgcagg
1681 aactggcaga cacatgtcca ttaactttaa attgtgacag gattgaaaac aaggggaaag
1741 tcttcgatag cgacgcgatc ataattacca ccaatttggt caatcccgcg ccgctggatt
1801 acgtcaactt tgaggcctgc tccagacgta tagacttcct tgtgtatgct gatgccccag
1861 aagtcgagaa ggcaaagcgg gacttccctg gtcaaccgga catgtggaag gacgcctatc
1921 gctctgactt ctcacacatt aaactacaac ttgcaccaca gggtgggttt gacaaaaatg
1981 gaaacacccc acatggtaaa ggagtgatga agactctcac tgccagttca ctggttgcac
2041 gtgcctctgg tctcttgcac gagagattag atgagtacga gctacagggt ccgcccctct
2101 caaccttcaa ctttgaccgc aacaaaattg cagcgttcag gcaactcgcc gctgaaaata
2161 agtatggtct ggtggacacg atgagggtgg gcaaccagct cagaaatgtt acgaccatgg
2221 atgaactcaa gaaagctatc aagaacatca taatcagaaa gtgccagata gtctacggtg
2281 gtaacactta cacgcttgag tctgacggca agggtaaggt tgtggttgag agggtgcaga
2341 gcgccagcgt gcaaatcaac aatgagatcg ctggtgcagt acaccacctc agatgtgcca
2401 ggataaggta ttatgtcaag tgtgtccaag aggccatcta ctcactcctc caaatcgccg
2461 gcacggtgtt tgtcacttca cgcatcataa gccgcatgaa catccaaaat ttatggtcca
2521 ggccactaac cgaagatgca gatgaggcca ctatgaaaga ggggtgcccc aaacctaggg
2581 aagaagagga atttgtcgtc tcctcagatg acatcaagcc agagggcaag aaaggtaaaa
2641 acaagagtgg ccggggcaag aaacacacgg cattctcaag caaaggtctc agtgatgagg
2701 agtacgaaga gtacaaaagg atcagagagg agagaaatgg caagtactcc atagaggaat
2761 acctacagga cagagacaaa tactatgaag aggtggccat tgccagggca actgaagaag
2821 acttctgtga agaggaagag gttaagattc gtcagaggat cttcaggcca acaagaaaac
2881 aacgcaagga agaaagagcc aaccttggcc tcgttaccgg gtctgagatc agaaagagga
2941 acccagatga cttcaaacca aaaggaaagc tgtgggccga cgatgatagg agcgtcgact
3001 acaatgaaag aatcagcttt gaggccccac caagtatatg gtctagaatt gtcaactttg
3061 gttctggatg ggggttttgg gtgtcaccta gcctcttcat aacatcaaca catgtcatac
3121 ctcaaggcat aactgaggcc tttggtgtac ctataaggca ggtgcaaata cacaaatcag
3181 gcgaattctg tcgcctgaga ttcccaaaac ccatcaggac agatgtgtca ggtatgatac
3241 tggaggaggg agcgcctgaa ggcactgttg ccaccatact catcaaaaga accactggag
3301 agctgatgcc tctcgcagca agaatgggca cccacgcgac catgagaata caaggacgca
3361 cggtgggcgg ccagatggga atgctgctca ctgggtccaa tgcaaagagc atggatcttg
3421 gcaccacgcc cggtgattgt gggtgtccct acatttacaa aaggggcaac gactacatag
3481 tcattggagt tcacacagca gccgctcgtg gcggaaacac tgtcatctgc gccacacagg
3541 gtagtgaggg tgaggccacg ctcgagggtg gtgacaacaa aggaacatac tgtggggcgc
3601 caatcctagg ccccgggaat gccccaaaac tgagcaccaa aaccaaattc tggaggtcct
3661 ccacaacacc acttccaccc ggcacatacg agccggcata tctgggagga aaagaccccc
3721 gagtcatagg tgggccatct ctgcaacaag ttatgcgaga ccaactgaag ccattcaccg
3781 aaccccgtgg taagccacca aaaccaagtg tcctcgaagc tgctaaaaag acaattatca
3841 atgtgctaga gcaaacaata gacccccctc aaaagtggac gtacgcacaa gcgtgcgcgt
3901 ctcttgacaa aactacgtct agtgggtacc ctcaccacgt gcgcaaaaac gagcactgga
3961 atggggaatc tttcacagga aaattggctg accaggcatc aaaagcaaac ctaatgtttg
4021 aagaggggaa gcacatgacc ccagtttaca cagctgccct taaggatgaa ttggtcaaaa
4081 ctgagaaagt gtatgggaag ataaagaaga ggttgctttg gggctctgac ctggctacca
4141 tggtgcggtg cgcgcgctcc tttggcggtt tgatggacga actcaaggcc cactgtgtga
4201 cacttccgat aagggttggc atgaatatga atgaagatgg accaatagtc tttgagaagc
4261 actccagata caggtatcac tatgatgcag attattccag gtgggattca acacagcaga
4321 gagccgttct ggccgcggcc atggagatta tggttaaatt ctcagcagag ccacaactag
4381 cccaaatagt tgcagaggac ctattgtcgc ctagcgtggt tgacgtgggc gacttcaaaa
4441 tttccatcaa cgaaggattg ccatcgggtg tcccttgcac ctctcaatgg aattccatcg
4501 cacactggct cctcacctta tgtgcccttt ctgaagttac agacctctct cctgacattg
4561 tgcaggccaa ctccctcttc tccttttatg gtgatgatga aattgtgagc acagatatca
4621 aattagaccc agaaaagctg acggggaagt tgagagaata tggcctcaaa cccactcgtc
4681 cggacaaaac tgaaggcccc ctgatcatta gtgaggatct gaatggcctg actttcctga
4741 ggagaaccgt cactcgcgac cctgcaggat ggtttggcaa actggaccaa agttccatac
4801 ttaggcaatt gtattggacc aaaggcccca atcatgaaga tccctttgag tcaatgattc
4861 cacactccca gagacccata caactcatgt cactcttggg cgaagcagca ctgcatgaac
4921 catcattcta cagcaagatc agcaagcttg tgatatctga gttgaaagaa ggtggaatgg
4981 atttttacgt gcccaggcaa gaacctatgt tcaggtggat gagattctca gatttgagca
5041 cgtgggaggg cgatcgcaat cttgctccca gtcttgtgaa tgaagatggc gtcgaatgac
5101 gccgctccat ctactgatgg tgcagccggc ctcgtgccag aaagtaataa tgaggtcatg
5161 gctcttgaac ccgtggctgg cgccgccttg gcagccccgg tcaccggtca aacaaatatt
5221 atagaccctt ggattagagc aaattttgtc caggccccta atggtgaatt tacagtctct
5281 ccccgtaatg cccctggtga agtgctattg aatctagagt tgggtccaga attaaatcct
5341 tatctggcac atttagcaag aatgtacaac gggtatgccg gtgggatgga ggtgcaggtc
5401 atgttggctg ggaacgcgtt cacagccggc aagttggtct tcgccgctgt gccacctcac
5461 ttcccggttg aaaaccttag tccacagcaa attaccatgt tccctcatgt gattatagat
5521 gtaaggactt tggaacctgt tttattacca ctccctgatg ttagaaataa tttcttccat
5581 tataatcaga aagatgatcc caagatgaga attgtggcta tgctttatac cccccttagg
5641 tctaatggtt caggtgatga tgtgtttaca gtctcctgca gggtgttgac tagaccctcc
5701 cctgattttg atttcacata tctggtgcca ccaacagtgg agtctaaaac aaaaccattt
5761 accctcccaa tcctcacact tggggaactt tccaattcta gattcccagt gtccatagac
5821 cagatgtaca ccagccccaa tgaagttata tcagtgcagt gtcaaaatgg taggtgcaca
5881 ctggatgggg agctccaagg aacaacacaa ctccaagtca gtggcatttg tgctttcaag
5941 ggagaagtga ccgcccattt gcatgacaat gatcatctat ataatgtcac catcacaaac
6001 ttgaatgggt ccccctttga cccctccgag gacatccctg cccctctggg cgtacctgac
6061 tttcagggaa gggtctttgg tgtcatctcc caaagagaca aacacaattc ccctggacat
6121 aatgaaccag caaatagggg gcacgacgct gtggtcccta cttacacacc acagtacact
6181 ccaaaattgg gtcagattca aattggcaca tggcaaaccg atgatcttac agtcaaccaa
6241 ccagtcaaat tcaccccagt tggactcaat gacactgaac attttaacca atgggtggtc
6301 cccagatatg ctggtgctct aaaccttaac acaaaccttg ccccttctgt tgctccagta
6361 tttccagggg agcgcctgct ctttttcaga tcatacatcc ccctcaaggg tggttatgga
6421 aatccagcca ttgattgcct actaccacaa gagtgggtgc agcatttcta tcaggaagca
6481 gccccttcaa tgagtgaggt ggcccttgtc agatacatca acccggatac tggtcgggca
6541 ctgtttgagg ccaaactcca cagagctggt tttatgacag tctcaagcaa caccagtgcc
6601 ccggtggttg tgcctgccaa cggatacttc agatttgatt cttgggtgaa ccaattctat
6661 tctctcgccc ccatgggaac tggaaatggg cgtagaaggg ttcaataatg gctggagctt
6721 ttgtagctgg tcttgcaggg gacgtgctca gcaatgggct cagttcatta attaatgcag
6781 gtgctaatgc aataaatcag agggcagaat ttgattttaa tcagagatta cagcaaaatt
6841 cttttaatca tgataaggag atgttgcagg ctcagattca ggcaactaag cagctgcagg
6901 cagacatgat ggctataaag cagggggtcc tgaccgctgg cggcttttcc cctgctgacg
6961 cagccagagg tgctgtgaat gcgcccatga cacaggcgct ggattggaac ggcacaaggt
7021 attgggcacc aggctccatg agaaccacat cttactctgg aagattcaca tcaaccgccc
7081 cagtgaggca ggccgacttc cagcacaccc aaagccggcc ttcgagtggc tcttctgtgt
7141 cctcctttgc tactcagtct tcaaggccaa ctctgactac aaccactggg tcctcacatg
7201 gcacagcctc atcaaactcg actcgcagca caaacctctc ccaatcaacg gtctctaggg
7261 ccacatctag gactggtgag tgggttagag atcaaaatag aaatttggaa ccctatatgc
7321 atggtgcctt acaaacagcc tttgtcaccc caccttccag cagggcgtct gacggaacgg
7381 tctcaaccgt cccaaagggt gttttggact cctggacacc tgcgttcaac acccgcaggc
7441 agccgctttt tgcacacctc cgtaagaggg gggagtcaca agcttagtga aaaggtgaaa
7501 atttatctaa aatgaattga tcttaccttt t
//