Typing tool
|
Complete norovirus genomes
LC209452 | GII.2 | ||
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GII.P16 |
ORF1: 1..5089 ORF2: 5070..6698 ORF3: 6698..7477LOCUS LC209452 7521 bp RNA linear VRL 14-DEC-2017 DEFINITION Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Osaka-038 RNA, nearly complete genome. ACCESSION LC209452 VERSION LC209452.1 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Osaka-038 ORGANISM Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Osaka-038 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 7521) 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..7521 /organism="Norovirus Hu/GII/JP/2011/GII.P16_GII.2/Osaka-038" /mol_type="genomic RNA" /strain="Hu/GII/JP/2011/GII.P16_GII.2/Osaka-038" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1934278" /country="Japan: Osaka" /collection_date="2011" /note="genotype: GII.P16_GII.2" gene <1..5089 /gene="POL" CDS <1..5089 /gene="POL" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BBB86974.1" /translation="ASNDANVAVAYNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQS APRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPDVA NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA KVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL NRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIK PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLENYELQGPEDLA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK RDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERMDEFELQGPTVATFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEE LKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHHLKHA RIRYYVRCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEAPKS EDDEFIISSKDIKEEGKKGKNKTGRGRKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTGSE IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI TSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGET FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLSTMI RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWN SIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEYGL KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPNFVNEDGVE" gene 5070..6698 /gene="VP1" CDS 5070..6698 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BBB86975.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6698..7477 /gene="VP2" CDS 6698..7477 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BBB86976.1" /translation="MAGAFMAGLAGDVLSNGLSSLINAGANVINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPGSMRTTSYSGKFTSIAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGAASSNSTRSTGLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA" ORIGIN 1 ggcgtctaac gacgctaacg ttgccgttgc ttacaacaac aacaacgaca aggaaaaatc 61 ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggcccg 121 gcccaaacag tccgccccga gggacaactc acaaaagccc ccaagaccac caactcccga 181 gttggttaag aggatacccc ctcccccacc taatggtgaa gaagaagagc cagtcattag 241 gtatgaggtt aagagtggga tctctggcct gcccgagctc acaacagtcc cccaaccgga 301 tgtggccaac acggcattca gtgtcccacc gctgagcttg agagaaaaca gggaggccaa 361 ggaaccgctg acaggggcaa tattagagat gtgggatgga gagatatacc actatggcct 421 gtacgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcta taagcatggc 481 aaaagtggag ctgacgccgt tgtcattgta ctggcgtgtg gtctacaccc cccaatacct 541 catctcccct gaaactctca ggaggctcaa cggagaggca ttcccttaca ccgcctttga 601 caataattgc tatgcctttt gctgctgggt attagacctc aatgactcat ggcttaacag 661 gaggatggta caaagaacaa caggcttctt cagaccttac caagagtgga acagaaaacc 721 cctgcctact atggatgact ccaaaatcaa gaaggtggca aacatattcc tgtgttcatt 781 gtccacgttg ttcaccagac ctataaaaga cctcatagga aaaattaaac cattaaacat 841 cttgaacatc ctggcaacgt gtgactggac attcgccgga atagtggagt ctctgatatt 901 acttgctgaa ctctttggag ttttctggac acccccagat gtgtctgcta tgatcgctcc 961 cttacttgaa aactacgagt tgcaagggcc agaagacctc gccgttgagc tcgtacctgt 1021 ggtaatggga gggattggtt tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt 1081 gtcctcagca gcatcaacgc tcagggcttg taaggatctt ggtgcctatg gcttagagat 1141 actcaaattg gtcatgaagt ggttcttccc aaagaaagaa gaggccaatg agctagccat 1201 ggtgagagct atagaggatg ctgtgttgga tcttgaggca atagaaaata atcacatgac 1261 aactctgttg aaagacaaag acagcctagc aacctacatg aaaacactag acatggaaga 1321 ggagaaagcc agaagattgt ccacaaagtc tgcatcccct gacatagttg ggacgatcaa 1381 cgccctgctg gctcgaatag cagcggctag gtcattagtc cacagggcca aggaggagtt 1441 atctagcagg ataagaccag tagttgttat gatatctggc aaaccaggga taggtaaaac 1501 tcatttggct agggaggtgg caagaaaggt ggcatccact ctcacagggg atcaaagagt 1561 cgggctcata ccgagaaacg gtgtggacca ctgggatgca tacaaaggtg agagagtcgt 1621 gctgtgggac gactatggca tgagcaaccc cattcatgat gctttgcgca tacaagaatt 1681 ggctgatacg tgtcccctta ccttaaattg cgacagaatt gaaaataagg gaaaagtctt 1741 tgacagtgaa gtcataataa ttacaacaaa ccttgccaat ccagctccac ttgattatgt 1801 caactttgag gcctgttcca ggagaattga cttcctggtg tacgccgagg caccagaagt 1861 agaaaaggca aaacgagact ttcctggtca accagatatg tggaaggacg ccttcaagtc 1921 ggacttttca catatcaagt tgcaacttgc acctcagggc ggctttgaca agaatggtaa 1981 caccccacat gggaaaggag tgatgaagac cctcaccacc ggttccctga ttgcccgtgc 2041 ttcaggctta ctgcatgaga ggatggatga atttgaactc caaggcccca cagttgccac 2101 cttcaatttc gaccggaaca gaatcaccgc attcagacaa ttggccgcag aaaacaagta 2161 tgggttggtg gacaccatga gagttggcaa tcaattaaaa ggggtgaaaa ccatggaaga 2221 actcaaacaa gcaatcaaga atgtgatcat caagaggtgc cggatcatct acggtggctc 2281 cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg tcaagaacac 2341 ctctatacag accaacaacg agttggctgg agccctgcat cacctcaaac atgcccgaat 2401 caggtattat gtcagatgtg tgcaagaagc agtttactct atcatacaaa ttgccggcgc 2461 tgcgtttgtc accacacgca ttgcacgccg catgaacata caagagcttt ggtcgaagcc 2521 accattagac caaaatgaat cagaggctaa ggaagaggcc cccaagtcag aagatgacga 2581 gttcatcata tcttctaagg acatcaagga ggaaggaaag aagggcaaaa acaaaactgg 2641 ccgtggcagg aaacacactg cattctctag caagggcttg agcgatgagg agtatgacga 2701 gtacaagagg ataagagaag agagaaatgg gaagtactct atagaggagt atcttcaaga 2761 cagagacagg tactatgagg aactcgccat cgccaaggcc acggaagaag acttctgtga 2821 ggaggaggag gtcaaaatcc gtcagaggat cttccgtccc accaggaaac aaaggaagga 2881 agagagggct acactaggac tagtaactgg ttcagaaatc agaaaaagaa accctgatga 2941 cttcaaacct aaagggaaac tgtgggccga tgacaacaga agtgttgact acaatgagaa 3001 actggacttt gaggcccccc caagcatatg gtctaggatt gtgagttttg gttctggttg 3061 gggcttctgg gtatcaccaa gcctgttcat aacatcaact catgtaatcc ctgcaggcat 3121 aacagaggca tttggagtcc ccatcaaaca aatccaggtc cacaaatcag gtgaattttg 3181 ccggttcaga ttcccaaaac caattagacc agatgtgaca ggaatgatat tggaagaagg 3241 tgcgcctgag ggcaccgtgg caaccgtact catcaaacgc cctaccggag agctcatgcc 3301 ccttgcagcc agaatgggga cacacgcaac catgaagatt caaggccgca tggttggcgg 3361 acagatgggt atgttgctca ctggttcaaa tgctaaagga atggatttgg gaacaactcc 3421 tggtgattgt ggctgtccct acatctacaa aaggggcaat gactatatag tcattggggt 3481 gcacacagca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg gaagtgaggg 3541 tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggagcac ccattctagg 3601 ccccgggggg gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc 3661 tcttccacca gggacatatg agcctgccta cctcggtggc cgtgacccgc gtgttaaggg 3721 tgggccctcc ttgcagcagg taatgagaga ccagttgaaa ccattcactg aacccagggg 3781 taaacctcca agaccaagtg tgttggaggc agccaaacaa accatcatca atgtcctcga 3841 acaaaccctg gaccctccac aaaaatggac atacgcacag gcgtgtgctt cacttgacaa 3901 aaccacctcc agcgggcatc cccaccacgt ccgaaagaat gaattctgga atggtgagac 3961 cttcactggt aaattggcag accaagcatc aaaagcaaat ctgatgtttg aggaagggaa 4021 acacatgaca ccagtgtata cagcagccct caaggacgag ctggtcaaga ctgacaaagt 4081 ctatggaaag atcaagaaga gactgctctg gggctctgac ttgtccacca tgatccggtg 4141 cgccaggtcc tttggtgggc ttatggatga gatgaaggca cactgcatat cactcccagt 4201 ccgagttggc atgaacatga atgaagatgg tccaataata tttgagaagc actccagata 4261 caagtaccac tatgatgcag actactcccg ctgggattca acacaacaga gggcagtact 4321 agcagcagcc ttggaaatca tggtcaggtt ctctgcagag ccacaattgg cacagatagt 4381 cgctgaggat ctgctggccc ccagtgtggt agatgtagga gactttaaaa tttcaataaa 4441 tgaggggctc ccctctggtg taccatgcac ttctcaatgg aattccatcg cacactggct 4501 gctaaccctc tgtgccttgt ctgaagtcac caaactgtcc cctgacattg tacaggcaaa 4561 ttccatgttc tcattttacg gtgatgatga gattgtcagc accgatataa aattggaccc 4621 tgaaaagtta accaccaaat tgaaggagta tggcctgaaa ccaactcgcc cagacaaaac 4681 cgagggaccc ctgatcatca gtgaggattt gaatggactc actttcctcc ggaggacggt 4741 gactcgtgac ccagctggct ggtttggaaa attggaccaa agctcaatat tgaggcagat 4801 gtactggact agaggaccaa atcatgaaga ccccaatgag acaatgatac cccactctca 4861 aagacccata cagctcatgg cactgcttgg tgaggcctcc cttcacggac cctctttcta 4921 cagcaaaatc agtaaattgg tcataactga actcaaagaa ggtgggatgg acttttacgt 4981 gccaagacag gaacccatgt tcaggtggat gaggttttct gacttgagca cgtgggaggg 5041 cgatcgcaat ctggctccca attttgtgaa tgaagatggc gtcgaatgac gccgctccat 5101 ctactgatgg tgcagccggc ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac 5161 ccgtggctgg tgccgccttg gcagcaccgg tcaccggtca aacaaatatt atagaccctt 5221 ggattagagc aaattttgtc caggccccca atggcgaatt tacagtctct ccccgtaatg 5281 cccctggtga agtgctatta agtctagaat tgggtccaga attaaatcct tatctggcac 5341 atttagcaag aatgtacaac gggtatgccg gtgggatgga ggtgcaggtc atgttggctg 5401 ggaatgcgtt cacagccggc aagttggtct tcgccgctgt gccacctcac ttcccggttg 5461 aaaaccttag cccacagcaa attaccatgt tccctcatgt gattatagat gtaaggacct 5521 tggaacctgt tttattacca ctccctgatg ttaggaataa tttcttccat tataatcaga 5581 aagatgatcc caaaatgaga attgtggcta tgctttatac cccccttaga tctaatggtt 5641 caggtgatga tgtgttcaca gtttcctgca gggtgttgac cagaccctcc cctgatttcg 5701 atttcacata tctggtgcca ccaacagtgg aatctaaaac aaaaccattc accctcccaa 5761 tcctcacact tggggaactt tccaattcta ggttcccagt gtccatagac cagatgtaca 5821 ccagccctaa tgaagttata tcagtgcagt gtcaaaatgg taggtgcaca ttggacgggg 5881 aacttcaagg gacaacacaa ctccaagtca gtggcatttg tgctttcaag ggggaagtga 5941 ccgcccattt gcatgacaat gatcacctat acaatgtcac catcacaaac ttgaatgggt 6001 ccccttttga cccctccgag gacgttcctg cccctctggg cgtgcctgat ttccagggaa 6061 gggtctttgg tattatctcc caaagagaca aacataatag ccctgggcat aatgaaccag 6121 caaacagggg acacgacgct gtggtcccta cttacacagc acagtacact ccaaaattgg 6181 gtcagattca aattggcaca tggcagaccg atgatcttac agtcaaccaa ccagtcaaat 6241 tcaccccagt tggactcaat gacactgaac attttaatca atgggtggtc cccagatacg 6301 ctggtgccct aaacctcaac acaaaccttg ccccttctgt tgctccggta tttccagggg 6361 agcgcctgct tttctttaga tcatacgttc ccctcaaggg tggttatgga aatccagcca 6421 ttgattgcct attaccacag gagtgggtgc aacacttcta tcaggaagct gccccatcaa 6481 tgagtgaggt ggcccttgtc agatacatca acccggatac tggtcgggca ctgtttgagg 6541 ccaagctcca cagagctggt ttcatgacag tctcgagcaa caccagtgcc ccggtggttg 6601 tgcctgccaa tgggtacttc agatttgact cttgggttaa tcaattctat tctctcgccc 6661 ccatgggaac tggaaatggg cgtagaaggg ttcaatgatg gctggagctt ttatggctgg 6721 tcttgcaggg gacgtgctca gcaatgggct cagttcatta attaatgcag gtgctaatgt 6781 aataaatcag agggcagaat ttgattttaa tcagaaatta cagcaaaatt ctttcaatca 6841 tgataaggag atgttgcagg cccagattca ggcaactaag cagctgcagg cagacatgat 6901 ggctataaaa cagggggtcc tgaccgctgg cggcttttcc cctgctgatg cagccagagg 6961 tgctgtgaat gcgcccatga cacaagcgct ggattggaac ggcacaaggt attgggcacc 7021 aggctctatg aggaccacat cttattctgg aaagttcaca tcaatcgccc cagtgaggca 7081 ggccgacttc cagcacaccc aaagccggcc ttcgagtggc tcttctgtgt cctcctttgc 7141 cactcagtct tcaaggccaa ctctgaccac aaccactggg tcctcacatg gcgcagcctc 7201 atcaaattca actcgcagca caggcctctc ccaatcaacg gtctctagag ctacatctag 7261 gactagtgag tgggttagag atcaaaatag aaatttggaa ccctacatgc atggtgcctt 7321 acagacggcc tttgtcaccc caccttccag cagggcgtct gacgggacag tctcaaccgt 7381 cccaaaaggt gttttggact cctggacacc tgcgttcaac acccgcaggc agccgctctt 7441 tgcacacctc cgtaagaggg gggagtcaca tgcctagtga aaaggtgaaa atttgtttag 7501 aataaattga ttctaccttt t //