Typing tool
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Typing tool
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Complete norovirus genomes
| LC209457 | GII.2 | |
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| GII.P2 |
ORF1: 1..5089
ORF2: 5070..6698
ORF3: 6698..7477
LOCUS LC209457 7559 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2015/GII.P2_GII.2/Miyagi-63 RNA, nearly
complete genome.
ACCESSION LC209457
VERSION LC209457.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2015/GII.P2_GII.2/Miyagi-63
ORGANISM Norovirus Hu/GII/JP/2015/GII.P2_GII.2/Miyagi-63
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 7559)
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..7559
/organism="Norovirus
Hu/GII/JP/2015/GII.P2_GII.2/Miyagi-63"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2015/GII.P2_GII.2/Miyagi-63"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934283"
/country="Japan: Miyagi"
/collection_date="2015"
/note="genotype: GII.P2_GII.2"
gene <1..5089
/gene="POL"
CDS <1..5089
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBB86989.1"
/translation="SNDASAAAAVNSNNDNTKSSSDGMLNNMAVTLKRALGARPKQPA
PKEKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPEANT
AFSVPPLSLRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISIAKV
ELTPLSLYWRPVYTPQYLIPPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLSR
RMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLKPL
NILNILASCDWTFAGIVESLILFAELFDVFWTPPDVSAMITPLLGDYELQGPEDIAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKI
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRD
FPGQPDMWKDAYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLL
HERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDELK
KAIKNIIIRKCQIVYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLRCARI
RYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATMKEGCPKPR
EEEEFVVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGSE
IRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVAT
ILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNA
PRLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWNGES
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLATMV
RCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQQ
RAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHED
PFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSLVNEDGVE"
gene 5070..6698
/gene="VP1"
CDS 5070..6698
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB86990.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNITITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVSQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6698..7477
/gene="VP2"
CDS 6698..7477
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB86991.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSITTQSSRPTLTTTT
GSSHGTTSSNSTRSTNLSQSTVSRAASRTGEWVRDQNRNLEPYMRGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtctaacgac gcttctgctg ccgctgctgt aaacagcaac aacgacaaca caaaatcttc
61 aagtgacgga atgcttaaca acatggccgt cacccttaaa cgagcccttg gggcccggcc
121 caaacagccg gccccaaagg aaaaaccccc aagaccccct agaccaccaa caccagagct
181 aatcaaaaga atcccccccc caccacccaa tgatggggac gaaccaaccg tgatgtttag
241 cactgtaggt ggtgtatctg gcctacctga gctcacaaca gtcggccaac cgcctgaagc
301 caacacggcc tttagtgtgc ctcccctcag cctaagggaa aacagagacg ctaaggaacc
361 gttgactgga actattctgg aaatgtggga tggggagatt taccattatg ggctgtatgt
421 ggaaagaggg cttgtgttag gcgtgcacaa gccgccagct gccatcagca tagccaaagt
481 ggaactaacg cccctctcac tgtactggag acctgtgtac acgcctcagt accttatacc
541 tcctgacacc ttgaggaaac tccatggcga attgtttccc tatacagcct ttgaaaacaa
601 ctgttatgcc ttctgctgtt gggtcttgga ccttaacgat tcatggctaa gcaggaggat
661 gattagtagg accactggct ttttcaggcc ctaccaagag tggaacagga agccccttcc
721 aactatggat gactcaaaat tgaagaaggt cgcaaacatt gttctgtgtg cattgtcatc
781 attgttcact agacccatca aggatataat tggcaaactt aaacccctca acatcctaaa
841 cattctggcc tcatgcgatt ggaccttcgc tggcatagta gagtcactaa tcctctttgc
901 tgaactcttt gatgtattct ggacaccccc agatgtgtct gcaatgatca cacccctcct
961 cggtgactac gagctacaag gccccgaaga catcgctgtg gagctcgtgc ccgttgtgat
1021 gggtgggata ggtctggtgt tgggattcac caaagagaaa ataggcaaga tgctctcctc
1081 tgcagcatca accctgaggg catgcaaaga tcttggagcc tacggattgg agatcctaaa
1141 actagtcatg aaatggtttt tcccaaagaa ggatgaggcc aacgaactgg ctatggttag
1201 agccattgaa gacgctgtac tagacctgga ggccattgag aacaaccaca tgaccactct
1261 attgaaagac aagaacagcc ttgcagccta catgaagacc ttggacatgg aagaggaaaa
1321 agctaggaag ctatccacaa aatcagcctc ccctgacatt gtgggcacca taaacgccct
1381 gctggctagg atcgctgccg cgcgttcctt agttcatagg gccaaggagg agctctccag
1441 cagaccaaga ccggtcgttt tgatgatctc tggcaaacca gggataggaa agacccactt
1501 ggccagggaa ctggcaaaga aaattgcctc gacactcaca ggagaccaaa gggtgggcct
1561 cattccgcga aatggagtcg accactggga cgcctacaaa ggtgagagag tggtgctctg
1621 ggatgattac ggaatgagca accctatcca tgatgcgctg aggttgcagg aattggcaga
1681 cacatgccca ttaaccctga attgtgacag gattgagaac aaagggaagg tctttgacag
1741 cgacgcgatc ataatcacca ccaatctggt caatcccgcg ccgctggatt atgtcaattt
1801 tgaggcctgc tccagacgta tagacttcct tgtgtatgct gatgccccag aagtcgagaa
1861 agcaaagcgg gacttccctg gtcaaccgga catgtggaag gacgcctatc gtcctgactt
1921 ctcacacatt aaactacaac ttgcaccaca aggtgggttt gacaaaaatg gtaacacccc
1981 acatggtaag ggagtgatga agactctcac tgccagttca ctggttgcgc gtgcctctgg
2041 tctgttgcac gaaagattag atgagtacga gttacagggt ccgcccctct caaccttcaa
2101 ctttgaccgc aacaagattg cagcgtttag acaacttgca gctgaaaata agtatggtct
2161 ggtggacacg atgagggtgg gcaaccagct cagaaatgtt acgaccatgg atgaactcaa
2221 gaaggctatc aagaacatca taatcagaaa atgccagata gtctatggtg gcaacactta
2281 cacgcttgag tctgacggca agggtaaggt tgtagttgag agggtgcaga gcgccagcgt
2341 gcaaattaac aatgagatcg ctggtgcagt gcaccacctt agatgtgcca ggataaggta
2401 ctatgtcaag tgtgttcaag aggccatcta ctcactcctc caaatcgccg gcacggtgtt
2461 tgtcacttca cgcatcgtaa gccgcatgaa catccaaaat ttatggtcca ggccattaac
2521 tgaagatgca gatgaggcca ctatgaagga ggggtgtccc aaacctaggg aagaagagga
2581 atttgtcgtc tcctcagatg acatcaaacc agagggtaag aaaggtaaaa acaagagtgg
2641 ccggggcaag aaacacacgg cattctcaag caaaggtctc agtgatgagg agtacgagga
2701 gtacaaaagg atcagagagg agagaaatgg caagtactcc atagaggaat acctacagga
2761 cagggacaaa tactatgaag aggtggccat tgccagggca actgaagaag acttctgtga
2821 agaggaagag gttaagatcc gtcagaggat cttcaggcca acaagaaaac aacgcaagga
2881 agaaagagcc aaccttggcc tcgtcaccgg gtctgagatc aggaagagga acccagatga
2941 cttcaaacca aaaggaaagc tgtgggccga cgatgacagg agcgtcgact acaatgaaag
3001 aatcagcttt gaggccccgc caagcatttg gtctagaatt gtcaactttg gttctggatg
3061 ggggttttgg gtgtcaccta gcctcttcat aacatcaaca catgtcatac ctcaaggcat
3121 aactgaagcc tttggtgtac ctataaggca ggtgcaaata cacaaatcag gcgaattctg
3181 tcgcctaaga ttcccaaaac ccatcaggac agatgtatca ggtatgatac tggaggaggg
3241 agcgcctgaa ggcactgttg ccaccatact catcaaaaga accactggag aactgatgcc
3301 tctcgcagca agaatgggca cccacgcgac catgagaata caaggacgca cggtgggcgg
3361 ccagatggga atgctgctca ctgggtccaa tgcaaagagc atggatcttg gcaccacgcc
3421 cggtgactgt gggtgtccct acatttacaa aaggggcaat gattacatag tcattggagt
3481 tcacacagca gccgctcgtg gcggtaacac tgtcatctgc gccacacaag gtagtgaggg
3541 tgaggccacg ctcgagggtg gtgacaacaa aggaacatac tgtggggcgc caatcctggg
3601 ccccgggaat gccccaaggc tgagcactaa aaccaaattc tggaggtctt ccacaacacc
3661 actcccaccc ggcacatacg agccggcata tctgggagga aaagaccccc gagtcaaagg
3721 tggaccatct ctgcaacaag ttatgcgaga ccaactgaag ccatttactg aaccccgtgg
3781 taagccacca aaaccaagtg tccttgaagc tgctaaaaag acaattatca atgtgctaga
3841 gcaaacaata gaccccccac aaaagtggac gtacgcgcaa gcgtgcgcgt ctctcgacaa
3901 aaccacatct agtgggtacc cccaccatgt gcgcaaaaat gagcactgga atggggaatc
3961 tttcacagga aaattggctg accaggcatc aaaagcaaac ctaatgtttg aagaggggaa
4021 gcacatgacc ccagtttaca cagctgccct taaggatgag ttggtcaaaa ccgagaaagt
4081 atacgggaag ataaagaaga ggttgctttg gggctctgat ctggccacca tggtgcggtg
4141 cgcgcgctcc tttggtggtt tgatggatga actcaaggcc cattgtgtga cacttccgat
4201 aagggttggc atgaacatga atgaagatgg accaatagtc ttcgagaaac actccagata
4261 caggtatcac tatgatgcag attattccag gtgggattca acacagcaga gagccgttct
4321 ggccgcggcc atggagatta tggttaaatt ctcagcagaa ccacaactag cccaaatagt
4381 tgcagaggac ctattgtcgc ctagtgtagt tgacgtgggc gacttcaaaa tttccatcaa
4441 tgaaggatta ccatcgggtg tcccttgcac ctctcaatgg aattcaatcg cacactggct
4501 cctcacctta tgtgcccttt ctgaagttac agacctctct cctgacatcg tgcaggccaa
4561 ctccctcttc tccttctatg gtgatgatga aattgtgagc acagacatta aattagaccc
4621 agaaaaactg acggggaagt tgagagaata tggcctcaaa cccactcgcc cagacaaaac
4681 tgagggcccc ctgatcatta gcgaggatct gaatggcctg actttcctaa ggagaaccgt
4741 cactcgcgac cctgcaggat ggtttggcaa actggaccaa agttccatac ttagacaatt
4801 gtattggacc aaaggcccca atcatgaaga cccctttgag tcaatgatcc cacattccca
4861 gagacccata caactcatgt cactcttggg cgaagcagca ctgcatgaac catcatttta
4921 cagcaagatc agcaagcttg tgatatctga attgaaagaa ggtggaatgg atttttacgt
4981 gcccagacaa gaacctatgt ttaggtggat gagattctca gatttgagca cgtgggaggg
5041 cgatcgcaat cttgctccca gtcttgtgaa tgaagatggc gtcgaatgac gccgctccat
5101 ctactgatgg tgcagccggc ctcgtgccag aaagtaataa tgaggtcatg gctcttgaac
5161 ccgtggctgg tgccgccttg gcagccccag tcaccggtca aacaaatatt atagaccctt
5221 ggattagagc aaattttgtc caggccccca atggtgaatt tacagtctct ccccgtaatg
5281 cacctggtga agtgctattg aatctagagt tgggtccaga attaaatcct tatctggcac
5341 atttagcaag aatgtacaac gggtatgccg gtgggatgga ggtgcaggtc atgttggctg
5401 ggaacgcgtt cacagccggc aagttggtct tcgccgctgt accacctcat ttcccggttg
5461 aaaaccttag tccacagcaa attaccatgt tccctcatgt gattatagat gtaaggacct
5521 tggaacctgt tttattacca ctccctgacg ttagaaataa tttcttccat tataaccaga
5581 aagatgatcc taagatgaga attgtggcta tgctttacac cccccttagg tctaatggtt
5641 caggtgatga tgtattcaca gtctcctgca gggtgttgac tagaccctcc cctgattttg
5701 atttcacata cctggtgcca ccaacagtag aatctaaaac aaaaccattc accctcccaa
5761 ttctcacact tggggaactt tccaattcta gatttccagt gtccatagat cagatgtaca
5821 ccagccccaa tgaagtcata tcagtgcagt gtcaaaatgg taggtgcaca ctggatgggg
5881 agctccaagg aacaacacaa ctccaagtca gtggcatttg tgctttcaag ggagaagtaa
5941 ccgcccactt gcatgacaac gatcacctat ataacatcac catcacaaac ttgaatgggt
6001 ccccttttga tccctccgag gatatccctg cccccttggg cgtacctgac tttcagggaa
6061 gggtctttgg tatcatctcc caaagagaca aacacaattc ccctggacat aatgaaccag
6121 caaatagggg acatgacgct gtggtcccta cttacacagc acagtacact ccaaaattgg
6181 gtcagattca aattggcaca tggcagaccg acgatctcac agtcagccaa ccagtgaaat
6241 tcaccccagt tgggctcaat gatactgaac attttaatca atgggtggtt cctagatatg
6301 ctggtgctct aaatcttaat acaaatcttg ccccttctgt tgctccagta tttccagggg
6361 agcgcctact ctttttcaga tcatatatcc ccctcaaggg tggttatgga aatccagcca
6421 ttgattgtct actaccacaa gagtgggtgc aacatttcta ccaggaggca gccccttcaa
6481 tgagtgaggt ggcccttgtc agatacatca acccggatac tggtcgagca ctgttcgagg
6541 ccaagctcca cagagctggt ttcatgacag tctcaagcaa cactagtgcc ccggtggttg
6601 tgcctgccaa cgggtacttt agatttgatt cttgggtgaa ccaattctat tctctcgccc
6661 ccatgggaac tggaaatggg cgtagaaggg ttcaataatg gctggagctt ttgtagctgg
6721 tcttgcaggg gacgtgctca gcaatgggct cagttcatta attaatgcag gtgctaatgc
6781 aataaatcag agggcagaat ttgattttaa tcagagatta cagcaaaatt cttttaatca
6841 tgataaggag atgttacagg ctcagattca ggcaactaag cagctgcagg cagacatgat
6901 ggctataaag cagggggtct tgaccgctgg cggcttttcc cctgctgacg cagccagagg
6961 tgctgtgaat gcgcccatga cacaggcgct ggattggaac ggcacaaggt attgggcacc
7021 aggctccatg aggaccacat cttactctgg aagattcaca tcaaccgctc cagtaaggca
7081 ggccgatttt cagcacaccc aaagccggcc ttcgagtggc tcttctgtgt cttccattac
7141 tactcagtct tcaaggccaa ctctgactac aaccactgga tcctcacatg gcacaacctc
7201 atcaaattcg acccgcagca caaacctctc ccaatcaacg gtctctaggg ctgcatctag
7261 aactggtgag tgggttaggg atcaaaatag aaatttggaa ccctacatgc gtggtgccct
7321 acagacagct tttgtcaccc cgccttccag cagggcgtct gatgggacag tctcaaccgt
7381 cccaaaaggt gttttggact cctggacacc tgcgttcaac acccgcaggc aaccgctttt
7441 tgcacacctc cgtaagaggg gggagtcaca agcttagtga aaaggtgaaa atctatccaa
7501 aatgaattga tcttaccttt taaaaaaaaa aaaaaaaaaa aaaaaaaaaa aaaaaaaaa
//