Typing tool
|
Complete norovirus genomes
LC258403 | GII.17 | ||
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GII.P17 |
ORF1: 1..5088 ORF2: 5069..6691 ORF3: 6691..7420LOCUS LC258403 7420 bp RNA linear VRL 14-JUN-2018 DEFINITION Norovirus Hu/GII/JP/2017/GII.P17_GII.17/Tokyo330021 POL, VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1, small basic protein VP2, partial and complete cds. ACCESSION LC258403 VERSION LC258403.2 KEYWORDS . SOURCE Norovirus Hu/GII/JP/2017/GII.P17_GII.17/Tokyo330021 ORGANISM Norovirus Hu/GII/JP/2017/GII.P17_GII.17/Tokyo330021 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Somura,Y., Kimoto,K., Oda,M., Okutsu,Y., Kato,R., Suzuki,Y., Saiki,D., Hirai,A., Akiba,T., Shinkai,T. and Sadamasu,K. TITLE [Serial Food Poisoning Outbreaks Caused by Norovirus-Contaminated Shredded Dried Laver Seaweed Provided at School Lunch, Tokyo, 2017] JOURNAL Shokuhin Eiseigaku Zasshi 58 (6), 260-267 (2017) PUBMED 29311445 REMARK DOI:10.3358/shokueishi.58.260 REFERENCE 2 (bases 1 to 7420) AUTHORS Oda,M., Somura,Y., Kimoto,K., Saiki,D., Suzuki,Y., Shinkai,T. and Sadamas,K. TITLE Direct Submission JOURNAL Submitted (12-APR-2017) Contact:Mayuko Oda Tokyo Metropolitan institute of public health, Microbiology; 3-24-1, Hyakunincho, Shinjyuku-ku, Tokyo 169-0073, Japan URL :http://www.tokyo-eiken.go.jp/ COMMENT On Jul 7, 2017 this sequence version replaced LC258403.1. FEATURES Location/Qualifiers source 1..7420 /organism="Norovirus Hu/GII/JP/2017/GII.P17_GII.17/Tokyo330021" /mol_type="genomic RNA" /strain="Hu/GII/JP/2017/GII.P17_GII.17/Tokyo330021" /host="Homo sapiens" /db_xref="taxon:1979542" /country="Japan:Tokyo" /collection_date="2017-02" /note="genotype: GII.P17_GII.17" gene <1..5088 /gene="POL" CDS <1..5088 /gene="POL" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BAX25523.2" /translation="ASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQPPPG ETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNT AYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKI EITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR RMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS PDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKV ASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTL NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRD FPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLL HERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDELK QAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSARI RYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKPR DEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSAKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE IRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFI TSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVS ILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP YIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNA PKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP PNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGES FTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMI RCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ RAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWN SIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGL KPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHED PSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5069..6691 /gene="VP1" CDS 5069..6691 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BAX25524.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6691..>7420 /gene="VP2" CDS 6691..>7420 /gene="VP2" /codon_start=1 /product="small basic protein VP2" /protein_id="BAX25525.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNASQSKPAKPRSLAPSSSSSSVYSMYTQST HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR ASSSGTVSTVPKEVLDSWTSAFNTH" ORIGIN 1 gcttccgctg ccgttgctgg caaaaacaac aacaacgaca aggaaaaatc ttcaagtgac 61 agcttgtttg ctaacatgtc tgtcactttt aagaaagccc tcggggcgcg gtctaaacaa 121 ccgcccccgg gagaaacaaa acaaatacaa aaaccaccaa ggccaccgac accggaattg 181 gtgaagagaa tacctccacc cccacccaat ggcgaggatg aaccagggat agtgtacaag 241 gtgggagagg gtgtgtctgg gctgcccgac ctaacaactg tggtacaacc tgacgcacaa 301 aacacagctt atagtgttcc cccacttagc cagagagaag tcggcgaagc taaagaaccg 361 ctgcctggct ccattctgga aatgtgggat ggtgagatct accactatgg gctgtatgtt 421 gagcgggggc atgtgctcgg agtacacaaa ccacctgctg caataagcct tgccaaaatt 481 gaaataacac cgctgtctct ctactggaga gtggtctaca ctccccagta tttgatagat 541 ccaggaactc ttaagaactt gagtggagag actttcccat acacggcctt tgacaacaac 601 tgttatgcct tctgttgttg ggtcctagac ctcaacgact cctggcttag caggagaatg 661 atccaaagaa caactggatt cttcaaacct tatcaggatt ggaacagaaa acccttacca 721 accatggatg aaccgaaaat caagaaggcc gcgaatgctg tcctatgcgc tctctcctca 781 ctcttcacta gacccattaa ggacatcatt ggaaagctta gaccactgaa cattcttaat 841 atactggcaa cctgcgattg gacttttgca ggcatagtgg aatccttgat ccttcttgct 901 gaactctttg gggtgttctg gacaccccca gatgtgtctg cgatgattgc tcccttactc 961 ggtgactacg agatgcaagg ccccgaagac ctggccgtgg aacttgtgcc cgtggtgatg 1021 ggaggaatag gtttggtgtt aggattcacc aaagaaaaga tcggcaagat gctttcatca 1081 gctgcgacca cacttagggc ctgcaaggat ctaggatctt atggattgga gatactcaaa 1141 ttggtcatga agtggttctt ccccaagaag gaggaggcta acgaactagc catggtgagg 1201 gccattgagg atgcagtcct ggatttggag gcaatagaaa acaatcacat gaccaccctt 1261 ctcaaggata aagacagcct ggccacatac atgaggactc ttgacttgga agaagagaaa 1321 gcaaggaaac tgtcaaccaa atcggcgtca cctgacatcg tgggtacaat aaacgcatta 1381 ttggctagga tagcagccgc caggtcactg gtccacaagg ctaaggagga gctctcgagc 1441 agacagagac ctgttgttgt aatgatatca ggtagaccag gtataggaaa gacccatctg 1501 gccagagagc tagccaagaa agttgcgtca acactgtcag gcgaccaaag gattggactg 1561 gtacctagaa atggcgtcga ccattgggac gcctacaagg gagaaagggt ggtcctgtgg 1621 gatgattatg gtatgagcaa ccctatacag gacgcactga ggctccaaga attggctgac 1681 acctgtcctc tgactctaaa ttgtgatagg attgaaaaca aaggaaaagt gttcgacagt 1741 gatgccataa ttataacaac caaccttgca aacccagcac cactagacta tgtcaacttt 1801 gaggcctgct ctagacgcat agacttcttg gtgtatgcag acgcacctga cattgagaag 1861 gctaagcgtg acttccctgg ccaaccagat atgtggaaag accatttcag accagacttc 1921 tcacacatta aacttcagct ggcaccacag ggaggttttg acaaaaatgg caacacccca 1981 catggcaaag gtgtggtgaa gtccctgacg attggttctc tgatcgccag ggcctccggc 2041 ttgctccacg agagaatgga tgaattcgag ctccaaggct ctgacctgcc aaccttcaat 2101 tttgaccgta acaaagtcgc cgccttcaga caattagcag ctgaaaacaa atatggtctt 2161 atggacacat tgagggtcgg caaccaactg aaaagtgtta agaccctgga tgagctgaag 2221 caggccataa agaacatcag tatcaagaag tgtcagatag tgtataatgg atgcacctat 2281 accatggaat ctgatgggag gggcaaggtt gtggttgaaa aggtacaaaa cgcaacagtt 2341 caaaccaaca atgaacttgt aggggcgctc caccacctga gatctgcaag gataagatac 2401 tatgttaaat gtttccaaga agccatttac tctctactcc aaattgctgg tgcagccttc 2461 gtcacctcac gcatcgtgag gcgcatgaac atatcaaacc tctggtcgaa gccacccatc 2521 gaggagggtg atgagcctga agacagagga ggatgcccca agcccaggga tgaagatgac 2581 ctcactattg actctagaga cattaaagtg gaagggaaga agggcaagaa caagtctggc 2641 cggggcaaga aacacacagc cttctctgcc aagggcctca gtgatgaaga gtacgatgag 2701 tacaagagaa tcagagagga gaggaatggc aaatactcaa tagaggaata cctccaagat 2761 agggacagat actatgaaga gcttgccatt gctaaggcta ctgaggagga cttctgtgag 2821 gaggaggaga tcaaaatccg ccagagaatc ttccgaccca ccaggaagca gcggaaagag 2881 gaaagggcca cgcttgggct tgtcacagga tcggaaatca gaaagaggaa tccagatgac 2941 tttaaaccaa aaggaaaatt gtgggctgat gacaacagga gcgtggatta caatgagagg 3001 atagattttg aggctccccc gagtgtttgg tctaggatag tcaactttgg cacaggctgg 3061 ggattctggg tttctccaag tctctttata acttcaacac acgtcatacc aaaaggaatc 3121 actgaggcct ttggagtgcc cataaaccaa atccaaattc acaaatctgg agaattttgc 3181 cgcttgcggt ttccaaagcc aattagacca gacgtgagtg ggatgatctt ggaagagggc 3241 gcccctgaag gcactgttgt gtctattctc atcaaaagga caacagggga gctgatgcct 3301 cttgcagtca gaatggggac tcatgccaca atgaaaatcc aaggtagaac ggtgggtggt 3361 cagatgggta tgcttctcac tggctcaaat gctaaaagca tggatctagg cacaacgcca 3421 ggtgactgcg gatgtccata catatacaaa aggggcaatg accttgtggt cattggggtg 3481 cacactgcag cagctcgtgg aggcaacacg gtcatatgtg ccacacaggg aagtgaaggt 3541 gaagccactc ttgaaggagg tgacaacaag ggtacctatt gtggagcccc cattttggga 3601 cctggcaatg cgccaaaatt gagcacaaag acaaaattct ggagatcctc taacgcaccg 3661 cttcccccag gtacttatga accagcatac cttggtggga gagacccgcg cgtgaaggga 3721 ggcccatctc tgcaacaagt tatgagagac caacttaaac ctttcacaga gcccagaggg 3781 aagccaccaa acccaaatgt cttagagtca gcaaagaaga ctatcatcaa tgttctggaa 3841 caaaccattg acccccctca aaagtggtca tatgcccaag cttgtgcatc cctcgacaag 3901 acaacctcca gtggataccc gcaccacgtc cggaagaatg actattggag tggtgaatcc 3961 ttcacaggaa aacttgcaga tcaggcttca aaagcaaatc tcatgtatga ggaaggcaag 4021 cacatgcaac cagtttacac cgcagcactc aaagacgagc tcgtgaaaac tgacaaaatt 4081 tatggcaaaa tcaagaaaag actcctgtgg ggttctgacc tctccacaat gattcgatgc 4141 gccagagcat ttggtggtct catggatgaa ttcaaagcaa attgtattac actccctatc 4201 agagttggta tgaatatgaa tgaagatggt cccataatat ttgagaaaca ctccaggtac 4261 aggtaccact atgatgctga ttactcccgc tgggactcca cacaacagcg ggcagtgctg 4321 gaagcggcac ttgaaatcat ggtgagattt tctgctgagc cacagctggc acaaatagtg 4381 gcagaggacc tgctgtcacc aagtgtggtt gatgtgggcg atttcaaaat cgctatcaat 4441 gaaggcctac catctggcgt gccttgcacc tcacaatgga attctattgc ccactggtta 4501 cttaccttgt gtgccctttc tgaagtgaca ggattaggtc ctgacatcat acaagctaac 4561 tccatgtact ctttctatgg tgatgatgag attgtgagca cagacataaa attggaccca 4621 gagaaattga ccgcaaagct caaagaatat ggccttaaac ccactcggcc cgacaaaact 4681 gaggggccgt tggtgattag tgaggacctg aatgggttga ctttcctccg ccgaacagtc 4741 acccgtgatc cagcaggttg gtttggaaag ttggaccaaa actccatcct caggcagttg 4801 tactggacaa gaggacccaa ccatgaagac cccagtgaga ccatgatacc acacgcacaa 4861 agacctgtgc agctcatggc actactagga gaatcctccc tacatggacc ctcattttac 4921 agcaaggtta gcaaattagt catatctgaa cttaaagagg gaggaatgga tttttatgtg 4981 cctagacaag agtcaatgtt cagatggatg aggttctcag atctaagcac atgggagggc 5041 gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc 5101 taatgatggt gctgctggtc tcgtaccaga gggcaacaac gagacccttc ccctagaacc 5161 agttgcgggc gcagctatag ccgcacccgt cactggccaa aataatataa ttgacccctg 5221 gattagaaca aattttgtgc aagcaccaaa tggagagttc acagtgtcac ccagaaactc 5281 tcctggagaa attttattaa atttagagtt gggccctgat ttgaaccctt atttggctca 5341 tttgtcaagg atgtacaatg ggtatgctgg tggagtggaa gttcaggttc tcctggcagg 5401 gaacgcgttc actgccggaa agatcctctt cgccgccgtc ccgccaaatt tcccagtgga 5461 attcttaagc ccagcccaga tcacaatgct cccacattta atagtagatg ttaggactct 5521 tgaaccaatt atgatcccac tccctgatgt taggaataca ttcttccatt atagtaacca 5581 gcctaacagc cgcatgagat tagtggctat gctctatacc ccactcagat ctaatggctc 5641 aggtgatgat gtctttactg tctcttgcag ggttttgact aggcctactc ctgattttga 5701 gttcacttat ttagtgccac cttctgttga atctaaaact aagccttttt ccttacctat 5761 tttaaccctt tctgagctca caaattcgag gtttccagtc cccatcgatt cgcttttcac 5821 cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc aggtgtacac ttgatggtga 5881 gttacaaggc acaacccagt tgctcccaac tggcatctgt gcattcagag gacgggtgac 5941 agcacaaatt aaccaacgtg acaggtggca catgcaactg caaaacctca atggtacaac 6001 atatgaccca actgatgatg tgccagcccc gctgggtaca cctgacttca agggcgtcgt 6061 gtttgggatg gtaagccaaa gaaatgtggg taatgatgcg cctggctcaa ccagagccca 6121 acaggcgtgg gtttcaacct atagccccca atttgtcccc aaattaggtt ctgtcaatct 6181 tagaattagt gataatgatg atttccaatt ccagccgaca aaattcacac cagtgggcgt 6241 caatgatgac gatgatggcc acccgttcag acaatgggaa ctaccaaact attcagggga 6301 gcttaccttg aatatgaatc ttgccccccc agttgctcca aattttcctg gtgaacaatt 6361 gttattcttc agatctttcg tgccatgctc aggaggttac aaccaaggta ttatagattg 6421 tcttattccc caagaatgga tccaacactt ctatcaggaa tcagcaccct cccagtcaga 6481 cgtggcccta atcaggtatg tcaaccccga tacgggacgt acactgtttg aagcaaaatt 6541 gcacagatct ggttacatca ctgtggctca ctctggagac tatcctcttg ttgttccggc 6601 taatggacac tttagatttg attcttgggt aaatcagttt tactcactcg ccccaatggg 6661 aactgggaat gggcgaagga gggctcagta atggctgggg ctttcattgc aggattggca 6721 ggcgacatgc tcacgtcatc tgtgggctcc cttgtgaacg caggggcaaa cgccatcaac 6781 caaaagatag actttgaaaa caacaaacaa ctccagtctg cttcctttca gcatgataaa 6841 gagatgctcc aagcgcaggt gagggcaacc aagcagctgc aatctgaaat gatagcccta 6901 aaacaggggg ttttggccgc aggcggcttt tcccccactg atgcagcaag gggatccatt 6961 ggtgcaccca tgacaaaggt gcttgactgg tctggcactc gatactgggc gcccaattcc 7021 acaaagacaa ctggctattc gggacaattc acctcttcac ctgtgcatat gtctagccca 7081 aatgcttcac aatcaaaacc tgcaaagcct aggtctctag ctccttcctc ttcttctagc 7141 agtgtctata gtatgtatac tcaatctact catttaacat ctggctcttc tagtaatgct 7201 tcttctgcct ccacaaaatt gacaaattta agctctggct cctctcaaaa cagaacagca 7261 gagtgggtaa atcaacagag aagtcttagc cctttcatga gtggcgcact taacatctca 7321 catgtcacgc caccctcaag tagggcttcc agttctggga cggtctcgac cgtgcccaag 7381 gaagttttgg actcctggac gtctgcgttt aacacacaca //