Typing tool
|
Complete norovirus genomes
LC209455 | GII.2 | ||
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GII.P16 |
ORF1: 1..5088 ORF2: 5069..6697 ORF3: 6697..7476LOCUS LC209455 7536 bp RNA linear VRL 14-DEC-2017 DEFINITION Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-8 RNA, nearly complete genome. ACCESSION LC209455 VERSION LC209455.1 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-8 ORGANISM Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-8 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 7536) 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..7536 /organism="Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-8" /mol_type="genomic RNA" /strain="Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-8" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1934281" /country="Japan: Miyagi" /collection_date="2013" /note="genotype: GII.P16_GII.2" gene <1..5088 /gene="POL" CDS <1..5088 /gene="POL" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BBB86983.1" /translation="MASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQ PAPRDNPQKPPRPPTPELVKRVPPPPPNGEEEPVIRFEVKSGISGLPDLTTVPQPDAT NTAFSVPPLSLRENREAKEPLTGAIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA KVELAPLSLYWRVVYTPQYLISPDILKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL NRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIK PLNILNILATCDWTFAGIVESLILFAELFGVYWTPPDVSAMIAPLLGEYELQGPEDIA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARKLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAK KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL TLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK RDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERMDEFELQGPTITTFNFDRNRVTAFRQLAAENKYGLVDTMRIGNQLKGVKTMEE LKQAIKNVSIKRCQIIYHGSTFDLESDGKGKVTVEKVKNTTVQTNNELAGALHHLRSA RIRYYVKCVQEAIYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEVKEETPKL EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI TSTHVIPSGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP YIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGET FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMV RCARAFGGLMDEMKAHCISLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ RAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWN SISHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGL KPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHED PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5069..6697 /gene="VP1" CDS 5069..6697 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BBB86984.1" /translation="MKMASNDAAPSTDGAAGLVPESTNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGAPDFQGRVFG VISQRDKHNTPGHNEPANRAHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGTPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ" gene 6697..7476 /gene="VP2" CDS 6697..7476 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BBB86985.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN SFNHDKEMLQAQVQATKQLQADMMAIKQGVLAAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTAYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSYGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLCKRGESQA" ORIGIN 1 atggcgtcta atgacgctac cgttgccgtt gcttgcaaca acaacaacga caaggaaaaa 61 tcttcgggtg aaggcttatt tacaaatatg tcttccaccc taaagaaagc cctcggggct 121 cggcctaaac agcctgcccc gagggacaac ccacaaaaac ccccaagacc accaacgccc 181 gagttggtta aaagggtacc ccctccccca cctaatggcg aagaagagcc agtcattagg 241 tttgaggtca agagtggaat ttctggcctg cccgatctca cgacagttcc tcaaccagat 301 gcgaccaata cggcattcag tgttccaccg ttgagcttaa gagaaaacag ggaggccaag 361 gaaccgctaa ctggggcaat aatagagatg tgggatggag agatatacca ctatggtttg 421 tatgtggaga aaggcctagt cttgggtgtg cacaaaccac ccgcagctat aagcatggca 481 aaagtggaat tagcaccgct gtcgttatac tggcgtgtgg tgtacactcc ccaatacctc 541 atctcccctg acattctcaa gaggctcaac ggggaggcat tcccctacac cgcctttgat 601 aataactgtt atgccttttg ctgctgggtg ttagacctta atgattcatg gctcaacaga 661 agaatggtgc agaggacgac aggcttcttc agaccctacc aagagtggaa cagaaagccc 721 ctacccacca tggatgattc caaaattaag aaggtggcaa acatattcct atgttcattg 781 tctacactgt tcaccaggcc tataaaagac atcataggaa aaatcaaacc actgaacatc 841 ttaaacattc tggcaacatg tgattggacg ttcgccggaa tcgtagagtc tctaatatta 901 tttgctgaac tctttggagt ttactggaca cccccagatg tgtctgctat gatcgctccc 961 ttacttggcg aatacgagtt gcagggacca gaagacatcg ccgttgagct cgtacctgta 1021 gtgatggggg ggattggttt ggtgctagga ttcaccaaag agaaaattgg caaaatgctg 1081 tcctcagcag cgtcaacgct cagggcttgc aaagacttag gtgcctatgg tttagagata 1141 ctcaaattag tcatgaaatg gtttttccca aagaaagaag aagccaatga actagccatg 1201 gtgagagcaa tagaggatgc tgttctggat cttgaggcga tagaaaacaa tcacatgaca 1261 gccctgctga aagataaaga cagccttgca acctacatga aaacactgga cctagaggag 1321 gagaaagcca gaaaactttc cacgaaatct gcatctcctg acatagttgg gacaatcaac 1381 gccctgctgg ctcgaatagc ggcggctaga tcactagtcc acagggccaa ggaggagcta 1441 tctagcagaa tcagaccagt tgtcgttatg atatctggca agccagggat aggcaagacc 1501 cacttggcca gggaggtggc gaaaaaggtg gcgtccactc tcacaggaga tcaaagagtt 1561 ggactcatac cgagaaacgg tgtggaccat tgggatgcat acaaaggtga aagggtcgtg 1621 ttgtgggatg actatggcat gagtaaccct attcatgatg cgctgcgcat acaggaattg 1681 gccgacacat gccccctcac cttgaattgt gacagaatcg aaaataaggg gaaagttttt 1741 gatagtgatg ttataataat tacaacaaac cttgccaacc cagctcctct tgattatgtc 1801 aactttgagg cctgttccag gagaattgac ttcctggtgt acgccgaagc gccagaagtg 1861 gaaaaggcaa aacgggattt ccctggtcaa ccagatatgt ggaaggacgc cttcaaagcg 1921 gacttctcgc acatcaagtt gcaacttgcg cctcagggcg gctttgacaa gaatggcaac 1981 accccacatg ggaaaggagt gatgaagacc cttaccaccg gttctctgat cgcccgtgcg 2041 tcaggtttgc tacatgagag gatggatgaa tttgaacttc agggccccac aatcaccact 2101 ttcaactttg accggaacag ggtcaccgct ttcagacaac tggctgctga gaacaaatat 2161 gggctggtgg acaccatgag gattggcaat caattgaaag gggtgaaaac catggaagaa 2221 ctcaagcaag ctatcaagaa tgtgtccatc aagaggtgcc agattatcta ccatggatcc 2281 acgtttgacc ttgagtctga tggcaagggt aaagttacag tggaaaaggt caaaaacacc 2341 actgttcaga ccaacaacga actggccgga gccctgcacc acctcagaag tgctcgaatc 2401 aggtattatg tcaaatgtgt gcaagaggca atctattcca tcctacaaat tgccggcgcc 2461 gcgttcgtca ccacacgcat tgcacgccgc atgaatatac aagagctttg gtcaaagcca 2521 ccattagacc aaagcgagcc agaggttaag gaggagaccc ccaagttaga ggatgatgaa 2581 ttcatcatct cctccaagga cattaaggag gaagggaaga agggcaaaaa caaaactggc 2641 cgtggcaaga aacacactgc attctctagc aagggcttga gcgatgagga gtatgacgag 2701 tacaagagga taagagaaga gagaaatggg aagtactcta tagaggagta tcttcaagac 2761 agggacaggt actatgaaga actcgccatc gccaaggcca cggaagaaga cttttgtgag 2821 gaggaagaaa taaaaatccg ccagcggatc tttcgtccca ctagaaaaca aaggaaggaa 2881 gaaagggcca cgttagggct agtgactggt tcggaaatca gaaaaagaaa ccctgatgac 2941 ttcaaaccta aagggaaatt gtgggccgac gacaacagaa gtgttgacta caatgaaaaa 3001 ctggactttg aggctccccc aagcatatgg tctaggatcg taagctttgg ttcaggttgg 3061 ggcttctggg tgtcaccaag cctgtttata acatcaactc atgtgatccc ttcgggtata 3121 acagaggcat ttggagtccc tatcaaacag attcaagtcc acaaatcggg cgagttttgt 3181 cggttcagat tcccaaaacc aattagacca gatgtaacag gaatgatcct ggaagaaggt 3241 gcgccagagg gcaccgtagc aaccgtgctc atcaagcgcc ccactggaga actcatgccc 3301 ctcgcagcta gaatgggaac acacgcaacc atgaaaattc agggccgcat ggttggtggg 3361 cagatgggca tgttgctcac tggttcaaat gctaagggta tggatctggg gacaactccc 3421 ggtgactgtg gctgcccgta tatttacaaa aggggcaatg actacatagc cattggagtg 3481 cacacagcag cagcccgagg tggtaacact gtcatctgtg ccacacaggg aagtgagggt 3541 gaggcgaccc tcgagggtgg agacgacaaa ggaacatact gtggggcacc catcctgggc 3601 cctggagggg cgccaaagtt aagcacaaaa accaaatttt ggagatcatc aaacacgccc 3661 cttccaccag ggacatatga gcctgcctac cttggcggtc gtgatccgcg tgtaaagggt 3721 gggccttccc tacaacaagt catgagagat cagttaaagc ccttcaccga gcccaggggt 3781 aaacccccga gacctagtgt gctggaggca gccaaacaga ccatcatcaa cgttctcgag 3841 caaactttgg atcctccaca aaaatggacg tacgcacagg cgtgcgcttc acttgataaa 3901 accacctcta gtgggcaccc ccatcacgct cgaaagaatg aattctggaa cggtgagacc 3961 tttaccggta agttggcaga ccaagcatca aaagcaaact taatgtttga ggaagggaaa 4021 catatgacac cagtgtacac agcagccctt aaggatgagt tggttaaaac cgacaaaatc 4081 tatgggaaga tcaagaaacg cctgctttgg ggctctgatt tatccaccat ggtccgatgt 4141 gctagggcct ttggtggact catggacgag atgaaggcgc actgcatatc gctcccaatc 4201 cgagttggca tgaatatgaa tgaggatggc ccaataatat ttgagaagca ctccagatat 4261 aaatatcact atgatgcaga ttactctcgc tgggactcaa cacaacagag ggctgttcta 4321 gcagcggcct tggaaataat ggtcagattc tctgcagaac cgcaactggc ccaaacagtt 4381 gctgaggatc tgctggcccc cagtgtagta gatgtcggag acttcaaaat ttcaataaat 4441 gagggactcc cttctggtgt accatgcact tcccagtgga actccatctc acactggtta 4501 ctaactctct gtgctttgtc tgaagtcacc aatctgtctc ctgacatcgt gcaggcaaat 4561 tctatgttct cattttacgg tgatgacgag atcgtcagca ccgatataaa attggaccct 4621 gaaaagttaa ccaccaaatt gagggagtat ggtctaaaac caactcgccc agataaaacc 4681 gaggggccct tgatcatcag tgaggatttg gacggtctca ccttcctccg gaggacggtt 4741 tctcgtgacc cagctggttg gtttggaaag ttagatcaaa gctcaatact aaggcagatg 4801 tattggacca gaggaccaaa ccatgaagac cccaatgaga caatgatacc ccactctcaa 4861 agacccatac agctcatggc actgcttggt gaggcctccc ttcacggacc ctctttctac 4921 agcaagatta gtaaattggt cataactgaa ctcaaagaag gtgggatgga cttttacgtg 4981 ccaagacagg aacccatgtt cagatggatg aggttttctg acttgagcac gtgggagggc 5041 gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc 5101 tactgatggt gcagccggcc tcgtgccaga aagtactaat gaggtcatgg ctcttgaacc 5161 cgtggctggt gccgccttgg cagccccagt caccggtcaa acaaatataa tagacccttg 5221 gattagagca aattttgtcc aggcccccaa tggtgaattt acagtctctc cccgtaactc 5281 ccctggtgaa gtgctattga atctagagtt gggtccagaa ttaaatcctt atctggcaca 5341 tttagcaaga atgtacaatg ggtatgccgg tgggatggag gtgcaggtca tgttggctgg 5401 gaatgcgttc acagccggca agttagtctt cgccgctgtg ccaccccact tcccggtcga 5461 aaaccttagc ccacagcaaa ttaccatgtt ccctcatgtg attatagatg tcaggacttt 5521 ggaacctgtt ttattaccac tccctgatgt taggaataac ttcttccatt acaatcagaa 5581 agatgatccc aagatgagaa ttgtggctat gctttacacc ccccttaggt ctaatggttc 5641 aggcgatgat gtgtttacag tctcctgcag ggtgttgact agaccctccc ctgattttga 5701 tttcacatat ctggtgccac caacagtgga atctaaaaca aaaccattca ctctcccaat 5761 cctcacgctt ggggaacttt ccaattctag attcccagtg tccatagacc agatgtacac 5821 cagccccaat gaagtcatat cagtgcagtg tcaaaatggc aggtgcacac tggatgggga 5881 actccaagga acaacacaac tccaagtcag tggcatttgt gctttcaagg gagaagtgac 5941 tgcccacttg catgacaatg atcacctgta taatgtcacc atcacaaact tgaatgggtc 6001 cccttttgac ccctccgagg acatccccgc ccctctgggc gcacctgact ttcagggaag 6061 ggtctttggt gtcatctccc aaagagacaa acacaacacc cctggacata atgaaccagc 6121 aaacagggca cacgatgccg tggtccctac ttatacagca cagtataccc caaaattggg 6181 tcagattcaa attggcacat ggcagactga cgatctcaca gtcaaccaac cagtcaaatt 6241 caccccagtt ggacttaatg acactgacca ttttaaccaa tgggtggtcc ccaggtatgc 6301 tggtgcccta aaccttaaca caaaccttgc cccttctgtt gctccagtat ttccagggga 6361 gcgtctgctc tttttcagat catacatccc cctcaagggc ggttatggaa ctccagccat 6421 cgattgccta ctaccacaag agtgggtgca acatttctat caggaagcag ccccttcgat 6481 gagtgaggtg gcccttgtca gatacatcaa cccggatact ggtcgggcac tgtttgaggc 6541 caaactccac agagctggtt tcatgacagt ctcaagcaac accagtgccc cggtggttgt 6601 gcctgccaac ggatacttca ggtttgattc ttgggtgaac caattctatt ctctcgcccc 6661 catgggaact ggaaatgggc gcagaaggat ccaataatgg ctggagcttt tgtagctggt 6721 cttgcagggg acgtgctcag caatgggctt agttcattaa ttaatgcagg tgctaatgca 6781 ataaatcaga gggcagaatt tgatttcaat cagagattac agcaaaattc tttcaatcat 6841 gataaggaga tgttgcaggc ccaggtccag gcaactaagc agctgcaggc agacatgatg 6901 gccataaaac agggggtcct ggccgctggc ggcttttccc ctgctgatgc agccagaggt 6961 gctgtgaacg cgcccatgac acaggcgctg gattggaacg gcacaaggta ttgggcacca 7021 ggctccatga ggactacagc ctactctggg agattcacat caaccgcccc agtgaggcag 7081 gctgattttc agcacaccca aagccggcct tcgagtggtt cttctgtgtc ctcctttgct 7141 actcagtctt caaggccgac cctgactaca accactgggt cctcatatgg cacagcctca 7201 tcaaattcga ctcgcagcac aaacctctcc caatcaacgg tctccagggc tacatctagg 7261 actggtgaat gggttagaga ccaaaacaga aatttggaac cttacatgca tggtgcctta 7321 cagacggcct ttgtcacccc accatccagc agggcgtctg atgggacggt ctcaaccgtt 7381 ccaaaaggtg ttttggactc ctggacacct gcgtttaaca cccgcaggca gccgcttttc 7441 gcacacctct gtaagagggg ggagtcacaa gcttagtgaa aaggtgaaaa tttatttaaa 7501 atggattgat ttttaccttt taaaaaaaaa aaaaaa //