Typing tool
|
Complete norovirus genomes
LC790062 | GII.2 | ||
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GII.P16 |
ORF1: 1..5092 ORF2: 5073..6701 ORF3: 6701..7480LOCUS LC790062 7490 bp RNA linear VRL 13-DEC-2023 DEFINITION Norovirus GII.2 GII/Hu/JP/2023/GII.2[P16]/TKY221324 RNA, nearly complete genome. ACCESSION LC790062 VERSION LC790062.1 KEYWORDS . SOURCE Norovirus GII.2 ORGANISM Norovirus GII.2 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y., Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K. TITLE The Detection of Norovirus in Tokyo JOURNAL Unpublished REFERENCE 2 (bases 1 to 7490) AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y., Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K. TITLE Direct Submission JOURNAL Submitted (09-DEC-2023) Contact:Hiroyuki Asakura Tokyo Metropolitan Institute of Public Health, Department of Microbiology; Hyakunincho 3-24-1, Shinjyuku-ku, Tokyo 169-0073, Japan URL :https://www.tmiph.metro.tokyo.lg.jp/ FEATURES Location/Qualifiers source 1..7490 /organism="Norovirus GII.2" /mol_type="genomic RNA" /isolate="GII/Hu/JP/2023/GII.2[P16]/TKY221324" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:490039" /country="Japan" /collection_date="2023-01" gene <1..5092 /gene="POL" CDS <1..5092 /gene="POL" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BEV21200.1" /translation="ASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP APRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDV ANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM ARVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW LSRRMIQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI KPLNILNILATCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA KRDFPGQPDMWKDTFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME ELKQAIRNVTINRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKH ARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNELETKEEAPK SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS EIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF ITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC PYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNELWNGE TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ QRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQW NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG LKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE DPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMF RWMRFSDLSTWEGDRNLAPNFVNEDGVE" gene 5073..6701 /gene="VP1" CDS 5073..6701 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BEV21201.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVSQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6701..7480 /gene="VP2" CDS 6701..7480 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BEV21202.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aagaaaaatc 61 ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag 121 gcccaaacag cctgccccga gagacaaacc acaaaagccc ccaagaccac caactcccga 181 gttggtaaag aggatacccc ctcccccacc taacggcgaa gaagaagaag aaccagtcat 241 taggtatgag gtcaagagtg ggatctctgg cctacccgag cttacaacag tcccccaacc 301 ggacgtggcc aacacagcat tcagtgttcc accactgagc ttgagagaaa acagggaggc 361 caaggagccg ctaacagggg caatattaga gatgtgggat ggagagatat accactatgg 421 cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat 481 ggcaagagtg gagctgacgc cgttgtcatt gtactggcgt gtggtgtaca ctccccaata 541 tctcatctcc cctgaaaccc tcaggaggct caacggagag gcgttccctt acaccgcctt 601 tgacaacaac tgctatgctt tttgctgctg ggtgttagac ctcaatgact catggcttag 661 caggaggatg atacaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa 721 acccctgcct accatggatg actccaaaat taagaaggta gcaaatatat tcctatgttc 781 attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta aaccattgaa 841 catattgaat atcctggcaa cgtgtgactg gacttttgcc ggagtagtgg agtctctgat 901 attacttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc 961 tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg aacttgtgcc 1021 cgtggtaatg ggggggattg gtttggtgtt gggattcacc aaagagaaaa ttggcaaaat 1081 gttgtcctca gcagcatcaa cactcagggc ctgcaaagat cttggtgcct atggcttaga 1141 gatactcaaa ttggttatga agtggttctt cccaaagaaa gaggaggcca atgagctagc 1201 tatggtgagg gctatagagg atgctgtatt agaccttgag gcaatagaaa ataaccacat 1261 gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga 1321 ggaggagaaa gccaggaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat 1381 caacgccctg ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga 1441 gctatctagt aggataaggc cagtagttgt tatgatatct ggcaagccag gaataggcaa 1501 aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag gagatcaaag 1561 agtcggactc ataccgcgaa acggtgtgga ccattgggat gcatataaag gtgagagagt 1621 tgtgttgtgg gacgactatg gcatgagtaa ccctattcat gatgctcttc gcatacaaga 1681 attggctgat acgtgtcccc ttaccttaaa ttgtgacaga attgaaaata agggaaaagt 1741 ttttgacagt gaagtcataa taattacaac aaaccttgcc aatccagccc cacttgatta 1801 tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga 1861 agtagaaaag gcaaaacggg actttcctgg tcagccagat atgtggaagg acaccttcaa 1921 gccggacttt tcacacatca agctacagct tgcaccccag ggcggctttg ataagaatgg 1981 caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc tgattgcccg 2041 tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggcc ccacaatcac 2101 cacctttaat ttcgaccgaa acagaatcac ggcattcaga caattggctg cagaaaacaa 2161 gtatggattg gtggatacca tgaaagttgg caatcaatta aaaggagtga aaaccatgga 2221 agaactcaaa caagcaatca ggaatgtgac catcaatagg tgccagatca tctacggtgg 2281 ttccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa aggtcaagaa 2341 cacctctgta cagaccaata acgagttggc tggggccctg caccatctca aacatgcccg 2401 aatcaggtac tatgtcaaat gtgtgcaaga agcagtctat tccatcatac aaattgccgg 2461 cgctgcgttt gtcaccacgc gcatcgcacg ccgcatgaac atacaagaac tctggtcgaa 2521 gccacaacta gatcaaaatg aattagagac taaggaagag gcccccaagt cagaagacga 2581 cgagttcatc atatcttcta aggacatcaa ggaggaagga aagaagggca aaaacaaaac 2641 tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga 2701 cgagtacaag agaataagag aagagagaaa tgggaagtac tctatagagg agtatcttca 2761 agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag aagacttctg 2821 tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga aacaaagaaa 2881 ggaagagagg gccacattag gactagtaac aggttcagaa atcagaaaaa gaaaccctga 2941 tgacttcaaa cccaaaggga agctgtgggc cgatgacaac aggagtgttg actacaatga 3001 gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct ttggctctgg 3061 ctggggcttc tgggtgtcac caagcctttt cataacatca actcatgtaa tccccgcagg 3121 cataacagaa gcatttggag tccccatcaa acaaattcag atccacaaat caggcgaatt 3181 ttgccgattc agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga 3241 aggtgcgcct gagggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat 3301 gcctcttgca gccagaatgg gaacacacgc aaccatgaaa attcaaggcc gcatggttgg 3361 cggacagatg ggtatgttgc tcactggatc aaatgctaaa ggaatggact tgggaacaac 3421 tcctggtgac tgtggctgtc cttacatcta taaaaggggc aatgactaca tagtcattgg 3481 ggtgcacact gcagcagccc gtggtggaaa cactgtcatc tgtgccacac agggaagtga 3541 gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg cacccattct 3601 aggccctggg ggtgcgccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac 3661 gccccttcca ccagggacat atgagcccgc ctacctcggt ggccgtgatc cgcgtgttaa 3721 gggtgggcct tccctgcagc aggtgatgag agaccagttg aagccattca ctgaacccag 3781 gggcaaacct ccaagaccaa gcgtattgga agcagccaaa caaaccatca tcaatgtcct 3841 cgaacaaacc ctggaccctc cacaaaaatg gacttacgca caggcgtgcg cctcacttga 3901 caaaaccacc tccagtgggc acccccatca cgtccgaaag aatgaactct ggaatggtga 3961 gaccttcact ggtaaactgg cagaccaagc atcaaaagca aacctaatgt ttgaggaagg 4021 gaaacacatg acaccagtgt acacagcagc actcaaggac gagctagtca agactgagaa 4081 aatttatgga aagatcaaga agagactgct ctggggctct gacttgtcca ccatgatccg 4141 gtgcgctagg tcatttggtg ggcttatgga cgagatgaag gcacactgca tatcactccc 4201 agtccgagtt ggcatgaata tgaatgaaga tggcccaata atatttgaga aacattccag 4261 atacaaatat cactatgatg cagactactc tcgttgggat tcaacacaac agagggcagt 4321 tctagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaac 4381 agtcgctgag gatctgctgg cccctagtgt agtagatgta ggagacttta aaatcacaat 4441 aaatgaaggg ctcccttctg gtgtgccatg cacttctcaa tggaactcca tcgcacactg 4501 gctgctaact ctctgtgcct tgtctgaagt caccaaacta tcccctgaca ttatacaggc 4561 aaattccatg ttctcatttt acggtgatga cgagattgtc agtaccgaca taaaattgga 4621 ccctgaacag ttaaccgcca aattgaagga gtacggcctg aaaccaaccc gcccagacaa 4681 aactgaggga cccctgatca tcagtgaaga cttgaacggt ctcactttcc tccgaaggac 4741 ggtgactcgt gacccagctg gttggtttgg aaaactggac caaagctcaa ttttgaggca 4801 gatgtactgg actagaggac caaatcatga ggaccccaat gagacaatga taccccattc 4861 ccaaagaccc atacagctca tggcactgct tggtgaagcc tctcttcacg gaccctcttt 4921 ctacagtaaa atcagtaaat tggtcataac tgaactcaaa gaaggtggga tggactttta 4981 cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga 5041 gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgaat gacgccgctc 5101 catctactga tggtgcagcc ggcctcgtgc cagaaagtaa caatgaggtt atggctcttg 5161 aacccgtggc tggtgccgcc ttggcagccc cggttaccgg tcaaacaaat attatagacc 5221 cttggattag agcaaatttt gtccaggccc ccaatggtga atttacagtc tctccccgaa 5281 atgcccctgg tgaagtgcta ctgaatctag agttgggtcc agaattaaat ccttatctgg 5341 cacatttagc aagaatgtac aatgggtatg ccggtgggat ggaggtgcag gtcatgttgg 5401 ctgggaacgc gttcacagcc ggcaagttgg tcttcgccgc cgtgccaccc cacttcccgg 5461 ttgaaaacct tagcccacag caaatcacca tgttccctca tgtgatcata gatgtgagaa 5521 ccttggaacc tgttttatta ccactccctg atgttaggaa taacttcttc cattataacc 5581 agaaagatga tcccaagatg agaattgtgg ctatgcttta tacccccctc aggtctaatg 5641 gttcaggtga tgatgtgttt acagtctcct gtagggtgtt gactagacct tcccctgact 5701 ttgacttcac atacctggtg ccaccaacag tggagtctaa aacaaagcca ttcaccctcc 5761 caatcctcac acttggggag ctttccaatt ctaggttccc agtatccata gaccagatgt 5821 acaccagccc taatgaaatt atatcagtgc agtgtcaaaa tggtaggtgc acattggacg 5881 gggagctcca ggggacaaca caactccaag tcagtggcat ttgtgctttc aaaggtgaag 5941 tgaccgccca cttgcatgac aatgatcacc tatataatgt caccatcaca aacttgaatg 6001 ggtccccttt tgatccctcc gaggatatcc ctgccccttt gggtgtgcct gacttccagg 6061 gaagggtttt tggtatcatc tcccaaagag ataaacacaa cagtcctggg cataatgaac 6121 cagcaaacag gggacatgac gctgtggtcc ctacttacac agcacagtac actccaaaac 6181 ttggacaaat tcaaattggc acatggcaaa ctgacgacct tacagtcagc cagccagtta 6241 aattcacccc agttggactc aatgacactg aacactttaa ccaatgggtg gtccctaggt 6301 atgctggtgc tctaaacctc aatacaaacc ttgccccttc tgttgctcca gtatttccag 6361 gagagcgcct gctcttcttc agatcataca ttcccctcaa gggcggttat ggaaacccag 6421 ccattgattg cctactacca caagagtggg tgcagcactt ctatcaggaa gcagcccctt 6481 caatgagtga ggtggccctc gtcagataca tcaacccgga cactggtcgg gcactgtttg 6541 aggccaagct ccacagagct ggtttcatga cagtctcgag caacaccagt gccccggtgg 6601 ttgtgcctgc caacgggtac ttcagatttg attcttgggt gaaccaattt tactctctcg 6661 cccccatggg aactgggaat gggcgtagaa gggttcaata atggctggag cttttgtagc 6721 tggtcttgca ggggacgtgc tcagcaatgg gcttagttca ttaatcaatg caggtgctaa 6781 tgcaataaat cagagggcag aatttgattt taatcaaaaa ttgcagcaaa attcttttaa 6841 tcatgataag gagatgttgc aggctcagat tcaggcaacc aagcagctgc aggcagacat 6901 gatggctata aaacaagggg tcctgaccgc tggcggcttt tcccctgctg atgcagccag 6961 aggtgctgtg aacgcgccca tgacacaggc gctggattgg aatggcacaa ggtattgggc 7021 accaaactcc atgaggacca catcttattc tggaaaattc acatcaaccg ccccagtgag 7081 gcaggctgac ttccagcaca cccaaagccg gccttcgagt ggctcctctg tgtcttcctt 7141 tgccactcag tcttcaaggc caactctgac cacaaccact ggttcctcac atggcacagc 7201 ctcatcaaat tcaactcgca gcacaagcct ctcccaatca acggtctcca gagctacatc 7261 taggactggt gagtgggtta gagatcaaaa tagaaatttg gaaccctaca tgcatggtgc 7321 cttacagaca gcctttgtca ccccaccttc cagcagggca tctgacggga cagtctcaac 7381 cgtccctaaa ggtgttttgg actcctggac acctgcgttc aacacccgca ggcagccgct 7441 ttttgcacac ctccgtaaga ggggggagtc acaagcttag tgaaaaggtg //