Typing tool
|
Complete norovirus genomes
LC644992 | GII.17 | ||
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GII.P17 |
ORF1: 1..5088 ORF2: 5069..6688 ORF3: 6688..7417LOCUS LC644992 7417 bp RNA linear VRL 04-AUG-2021 DEFINITION Norovirus GII.17 Hu/GII.17[P17]/1379F/Tokyo/2021/Japan genomic RNA, nearly complete genome. ACCESSION LC644992 VERSION LC644992.1 KEYWORDS . SOURCE Norovirus GII.17 ORGANISM Norovirus GII.17 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M., Chiba,T., Suzuki,J. and Sadamasu,K. TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo(April 2020-March 2021) JOURNAL Unpublished REFERENCE 2 (bases 1 to 7417) AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M., Chiba,T., Suzuki,J. and Sadamasu,K. TITLE Direct Submission JOURNAL Submitted (26-JUL-2021) Contact:Yu Yaoita Tokyo Metropolitan Institute of Public Health, Department of Microbiology; Hyakunincho3-24-1, Shinjyuku, Tokyo 169-0073, Japan URL :http://www.tokyo-eiken.go.jp/ FEATURES Location/Qualifiers source 1..7417 /organism="Norovirus GII.17" /mol_type="genomic RNA" /strain="Hu/GII.17[P17]/1379F/Tokyo/2021/Japan" /host="Homo sapiens" /db_xref="taxon:552592" /country="Japan:Tokyo" /collection_date="2021-03" gene <1..5088 /gene="POL" CDS <1..5088 /gene="POL" /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BDA20600.1" /translation="ASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARSKQPPPG ETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQPDAQNT AYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAKI EITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSR RMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSAS PDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKV ASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTL NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRD FPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLL HERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDELK QAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHHLRSARI RYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRGGCPKPR DEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE IRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFI TSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVS ILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTTPGDCGCP YIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNA PKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP PNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGES FTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMI RCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ RAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWN SIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGL KPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHED PSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5069..6688 /gene="VP1" CDS 5069..6688 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDA20601.1" /translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISNNDDFQFQPTKFTPVGVN DDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIIDC LIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVV PANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ" gene 6688..>7417 /gene="VP2" CDS 6688..>7417 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDA20602.1" /translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPFSSSSSVYSMYTQST HLASGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALDISHVTPPSSR 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 ctgcaaggac 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 aaacgcattg 1381 ttggctagga tagcagccgc caggtcactg gtccacaagg ctaaggagga gctctcgagc 1441 agacagagac ctgttgttgt aatgatatca ggtagaccag gtataggaaa gacccatctg 1501 gccagagagc tagccaagaa agttgcgtca acactgtcag gcgaccaaag gattggactg 1561 gtacctagga atggcgtcga ccattgggac gcctacaagg gagaaagggt ggtcctgtgg 1621 gatgattatg gtatgagcaa ccctatacag gacgcactga ggctccaaga attggctgac 1681 acctgtcctc tgaccctaaa 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 gtgtggtaaa gtccctgacg attggttctc tgatcgccag ggcctccggc 2041 ttgctccacg agagaatgga tgaattcgag ctccaaggtt ctgacctgcc aaccttcaat 2101 tttgaccgca 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 gataagatat 2401 tatgttaaat gtttccaaga agccatttac tctctactcc aaattgctgg tgcagccttt 2461 gtcacctcac gcatcgtgag gcgcatgaac atatcaaacc tctggtcgaa gccacccatc 2521 gaggagggtg atgagcctga agacagagga ggatgcccca agcccaggga tgaagatgac 2581 ctcactattg actctagaga cattaaagtg gaagggaaga agggcaagaa caagtctggc 2641 cggggcaaga aacacacagc cttctcttcc aagggcctca gtgatgaaga gtacgatgag 2701 tacaagagaa tcagagagga gaggaatggc aaatactcaa tagaggaata cctccaagat 2761 agggacagat actatgaaga gcttgccatt gctaaggcca 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 gggttctggg 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 gctaaaggca 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 caccaaaatt gagcacaaag acaaaattct ggagatcctc taacgcaccg 3661 cttcccccag gtacttatga accagcatac cttggtggga gagacccgcg cgtgaaggga 3721 ggcccatctc tgcaacaagt tatgagagac caacttaaac cttttacaga gcccaggggg 3781 aagccaccaa acccaaatgt cttagagtca gcaaagaaga ctatcatcaa tgttctggaa 3841 caaaccattg acccccctca aaagtggtca tatgcccaag cttgtgcatc cctcgataag 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 tttccacaat 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 cccagacaag 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 ccgattttga 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 aataatgatg atttccaatt ccagccgaca aaattcacac cagtgggcgt 6241 caatgacgat gatgaccacc cgttcagaca gtgggaacta ccaaactatt caggggagct 6301 taccttgaat atgaatcttg cccccccagt tgctccaaat tttcctggtg aacaattgtt 6361 attcttcaga tcttttgtgc catgctcagg aggttacaac caaggtatta tagattgtct 6421 tattccccaa gaatggatcc aacatttcta tcaggaatca gcaccctccc agtcagacgt 6481 ggccctaatc aggtatgtca accccgatac gggacgtaca ctgtttgaag caaaattgca 6541 cagatctggt tacattactg tggctcactc tggagactat cctcttgttg ttccggctaa 6601 tggacacttt agatttgatt cttgggtaaa tcagttttac tcactcgccc caatgggaac 6661 tgggaatggg cgaaggaggg ctcagtaatg gctggggctt tcattgcagg attggcaggt 6721 gacatgctca cgtcatctgt gggctccctt gtgaacgcag gggcaaacgc catcaaccaa 6781 aagatagact ttgaaaacaa caaacaactc cagtctgctt cctttcagca tgataaagag 6841 atgctccaag cgcaggtgag ggcaaccaag cagctgcaat ctgaaatgat agccctaaaa 6901 cagggggttt tggccgcagg cggcttttcc cccactgatg cagcaagggg atccattggt 6961 gcacccatga caaaggtgct tgactggtct ggcactcgat actgggcgcc caattccaca 7021 aagacaactg gctattcggg acaatttacc tcttcacctg tgcatatgtc tagcccaaat 7081 gctccacaat caaaacctgc aaagcctagg tctctagctc ctttctcttc ttctagcagt 7141 gtctatagta tgtatactca atctactcat ttggcatctg gctcttctag taatgcttct 7201 tccgcctcca caaaattgac aaatttaagc tctggctcct ctcaaaacag aacagcagag 7261 tgggtaaatc aacagagaag tcttagccct ttcatgagtg gcgcacttga catctcacat 7321 gtcacgccac cctcaagtag ggcttccagt tctgggacgg tctcgaccgt gcccaaggaa 7381 gttttggact cctggacgtc tgcgtttaac acacaca //