Typing tool
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Complete norovirus genomes
LC726086 | GII.2 | ||
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GII.P16 |
ORF1: 1..5083 ORF2: 5064..6692 ORF3: 6692..7471LOCUS LC726086 7491 bp RNA linear VRL 26-AUG-2022 DEFINITION Norovirus GII.2 Hu/GII.2[P16]/1088F/Tokyo/2022/Japan POL, VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1, capsid protein VP2, partial and complete cds. ACCESSION LC726086 VERSION LC726086.1 KEYWORDS . SOURCE Norovirus GII.2 ORGANISM Norovirus GII.2 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., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K., Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H., Nagashima,M., Suzuki,J. and Sadamasu,K. TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April 2021-March 2022 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7491) AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K., Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H., Nagashima,M., Suzuki,J. and Sadamasu,K. TITLE Direct Submission JOURNAL Submitted (23-AUG-2022) 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..7491 /organism="Norovirus GII.2" /mol_type="genomic RNA" /strain="Hu/GII.2[P16]/1088F/Tokyo/2022/Japan" /host="Homo sapiens" /db_xref="taxon:490039" /country="Japan:Tokyo" /collection_date="2022-01" gene <1..5083 /gene="POL" CDS <1..5083 /gene="POL" /note="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BDQ32374.1" /translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR DKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANT AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLNR RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGVGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK QAIRNVIIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSED DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRVREERNGKYSIEE YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS THVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA VLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDSEQLTAKLKEYGLKP TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM RFSDLSTWEGDRNLAPNFVNEDGVE" gene 5064..6692 /gene="VP1" CDS 5064..6692 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDQ32375.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6692..7471 /gene="VP2" CDS 6692..7471 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDQ32376.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLATTT GSSHGTASSNSTRSTSLSQSTVSRSTSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaagaaaaat cttcaggtga 61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca 121 gcctgccccg agagataaac cacaaaagcc cccaagacca ccaactcccg agttggtcaa 181 gaggataccc cctcctccac ctaacggcga agaagaagaa gaaccagtca ttaggtatga 241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc 301 caacacagca ttcagtgttc caccactgag cttgagagaa aacagggagg ccaaggagcc 361 gctaacaggg gcaatattag agatgtggga tggagagata taccactatg gcctgtacgt 421 ggagaaaggc ttagtgttgg gcgtgcacaa accacctgca gccataagca tggcaagagt 481 ggagctgacg ccgttgtcat tgtactggcg tgtggtgtac actccccaat acctcatctc 541 ccctgaaacc ctcaggaggc tcaacggaga ggcattccct tacaccgcct ttgacaacaa 601 ctgctatgcc ttttgctgct gggtgttaga cctcaatgac tcatggctta acaggaggat 661 ggtacaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc 721 taccatggat gactccaaaa ttaagaaggt agcaaatata ttcctatgtt cactgtccac 781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattga acatattgaa 841 tatcctggca acgtgtgact ggacttttgc cggaatagtg gagtctctga tattacttgc 901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact 961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat 1021 ggggggggtt ggtttggtgt tgggattcac caaagagaaa attggcaaaa tgttgtcctc 1081 agcagcatca acactcaggg cttgcaaaga tcttggtgct tatggcttag agatactcaa 1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ctatggtgag 1201 ggccatagag gatgctgtac tagaccttga ggcaatagaa aataaccaca tgacaaccct 1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa 1321 agccaggagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa tcaacgccct 1381 gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag agctatctag 1441 caggataagg ccagtagttg ttatgatatc tggcaaacca ggaataggca aaactcatct 1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaaa gagtcggact 1561 cataccacga aacggtgtgg accattggga tgcatacaaa ggtgagagag tcgtgctgtg 1621 ggacgactat ggcatgagta accctattca tgatgctctt cgtatacaag aattggctga 1681 tacgtgcccc cttaccttaa attgtgacag aattgaaaat aagggaaaag tttttgacag 1741 tgaagtcata ataattacaa caaaccttgc caatccagcc ccacttgatt atgtcaactt 1801 tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct gaggcaccag aagtagaaaa 1861 ggcaaaacga gactttcctg gtcagccaga tatgtggaag gacgccttca agccggactt 1921 ttcacacatc aagctacagc ttgcacccca gggcggcttt gacaagaatg gcaacacccc 1981 acatgggaaa ggagtgatga agaccctcac taccggttct cttattgccc gtgcatcagg 2041 cctactgcat gagaggatgg atgaatttga actccaaggt cccacgatca ccaccttcaa 2101 tttcgaccga aacagaatca cggcattcag acaattggct gcagaaaata agtatggatt 2161 ggtggatacc atgaaagttg gcaatcaatt aaaaggagtg aaaaccatgg aagaactcaa 2221 acaagcaatc aggaatgtga tcatcaagag gtgccagatc atctacggtg gttccacgta 2281 tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acacctctgt 2341 acagaccaat aacgagttgg ctggggccct gcaccatctc aaacatgcac gaatcaggta 2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt 2461 tgtcaccacg cgcattgcac gccgtatgaa catacaagaa ctctggtcga agccacaact 2521 agatcaaaat gaatcagaga ctaaggaaga ggcccccaag tcagaagatg acgagttcat 2581 catatcttct aaggacatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg 2641 caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg acgagtacaa 2701 gagggtaaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga 2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga 2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagaa aggaagagag 2881 ggccacatta gggctagtaa caggttcaga aatcagaaaa agaaaccctg atgacttcaa 2941 acccaaaggg aagctgtggg ccgatgacaa caggagtgtt gactacaatg agaaactgga 3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg gctggggctt 3061 ctgggtgtca ccaagccttt tcataacatc aactcatgta atccccgcag gcataacaga 3121 agcatttgga gtctccatca aacaaattca gatccacaaa tcaggcgaat tttgccgatt 3181 tagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc 3241 tgagggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc 3301 agccagaatg ggaacacacg caaccatgaa aattcaaggc cgcatggttg gcggacagat 3361 gggtatgttg ctcactggat caaatgctaa aggaatggac ttgggaacaa ctcctggtga 3421 ctgtggctgt ccttacatct ataaaagggg caatgactat atagtcattg gggtgcacac 3481 tgcagcagcc cgtggtggga acactgtcat ctgtgccaca cagggaagtg agggtgaggc 3541 aactcttgag ggtggggatg acaaaggaac atactgtggg gcacccattc taggccctgg 3601 gggtgcacca aaattgagca ccaaaaccaa attttggagg tcatcgaaca cgccccttcc 3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc 3721 ttccctgcag caggtaatga gagaccagtt aaagccattc actgaaccca ggggcaaacc 3781 tccacggcca agtgtattgg aagcagccaa acaaaccatc atcaatgtcc tcgaacaaac 3841 cctggaccct ccacaaaaat ggacatacgc acaggcgtgt gcctcacttg ataaaaccac 3901 ctccagcggg cacccccatc acgtccgaaa gaatgaattc tggaatggtg agaccttcac 3961 tggtaaactg gcagaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat 4021 gacaccagtg tacacagcag cactcaagga cgagctagtc aagactgaga aaatctatgg 4081 aaagatcaag aagagactgc tctggggctc tgacttgtcc accatgatcc ggtgcgctag 4141 gtcatttggt gggcttatgg acgagatgaa ggcacactgc atatcactcc cagttcgagt 4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatacaaata 4261 tcactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag tgctagcagc 4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa cagtcgctga 4381 ggatctgctg gcccctagtg tagtagatgt aggagacttt aaaattacaa taaatgaagg 4441 gctcccttct ggtgtgccat gcacttctca atggaactcc atcgcacact ggctgctaac 4501 tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac attatacagg caaattccat 4561 gttctcattt tacggtgatg acgagattgt cagcaccgac ataaaattgg actctgaaca 4621 gttaaccgcc aaactgaagg agtacggcct gaaaccaacc cgcccagaca aaaccgaggg 4681 acccctgatt atcagtgaag atctgaacgg tctcactttc ctccgaagga cggtgactcg 4741 tgacccagct ggctggtttg gaaaactgga ccaaagctca attttgaggc agatgtactg 4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccact cccaaagacc 4861 catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt tttacagtaa 4921 aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg atggactttt acgtgccaag 4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg 5041 caatctggct cccaattttg tgaatgaaga tggcgtcgaa tgacgccgct ccatctactg 5101 atggtgcagc cggcctcgtg ccagaaagta acaatgaggt catggctctt gaacccgtgg 5161 ctggtgccgc cttggcagcc ccggtcaccg gtcaaacaaa tattatagac ccttggatta 5221 gagcaaattt tgtccaggcc cccaatggtg aatttacagt ctctccccga aatgcccctg 5281 gtgaagtgct actgaatcta gagttgggtc cagaattaaa tccttatctg gcacatttag 5341 caagaatgta caatgggtat gccggtggga tggaggtgca ggtcatgttg gctgggaacg 5401 cgttcacagc cggcaagttg gtcttcgccg ccgtgccacc ccacttcccg gttgaaaacc 5461 ttagcccaca gcaaatcacc atgttccctc atgtgatcat agatgtgaga accttggaac 5521 ctgttttatt accactccct gatgttagga ataacttctt ccattataac cagaaagatg 5581 atcccaagat gagaattgtg gctatgcttt atacccccct caggtctaat ggttcaggtg 5641 atgatgtgtt tacagtctcc tgtagagtgt tgactagacc ttcccctgac tttgacttca 5701 catacctggt gccaccaaca gtggagtcta aaacaaagcc attcaccctc ccaatcctca 5761 cacttgggga actttccaat tctaggttcc cagtgtctat agaccagatg tacaccagcc 5821 ctaatgaaat tatatcagtg cagtgtcaaa atggtaggtg cacactggac ggggagctcc 5881 aagggacaac acaactccaa gtcagtggta tttgtgcttt caaaggtgaa gtgaccgccc 5941 acttgcatga caatgatcac ctatataatg tcaccatcac aaacttgaat gggtcccctt 6001 ttgatccctc cgaggatatc cctgcccctc tgggtgtgcc tgacttccag gggagggttt 6061 ttggtatcat ctcccaaaga gataaacaca atagtcctgg gcataatgaa ccagcaaaca 6121 ggggacacga cgctgtggtc cccacttaca cagcacagta cactccaaaa cttgggcaaa 6181 ttcaaattgg cacatggcaa actgacgacc ttacagtcaa ccaaccagtc aaattcaccc 6241 cagttggact caatgacact gaacacttta accaatgggt ggtccctagg tatgctggtg 6301 ccctaaacct caatacaaac cttgcccctt ctgttgctcc agtatttcca ggagagcgcc 6361 tgcttttctt cagatcatac attcccctca agggcggtta tggaaaccca gccattgatt 6421 gcctactgcc acaagagtgg gtgcaacact tctatcagga agcagcccct tcaatgagtg 6481 aggtggccct cgtcagatac atcaacccgg acactggtcg ggcactgttt gaggccaagc 6541 tccacagagc tggtttcatg acagtctcga gcaacaccag tgccccggtg gttgtgcctg 6601 ccaacgggta cttcagattt gattcttggg tgaaccaatt ttattctctc gcccccatgg 6661 gaactgggaa tgggcgtaga agggtccaat aatggctgga gcttttgtag ctggtcttgc 6721 aggggacgtg ctcagcaatg ggcttagttc attaatcaat gcaggtgcta atgcaataaa 6781 tcagagggca gaatttgatt ttaatcaaaa attgcagcaa aattctttta atcatgataa 6841 ggagatgttg caggctcaga ttcaggcaac taagcagctg caggcagaca tgatggctat 6901 aaaacaaggg gtcttgaccg ctggcggctt ttcccccgct gatgcagcca gaggtgctgt 6961 gaacgcgccc atgacacagg cgctggattg gaatggcaca aggtattggg caccaaactc 7021 catgaggacc acatcttatt ctggaaaatt cacatcaacc gccccagtga ggcaggctga 7081 cttccagcac acccaaagcc ggccttcgag tggctcctct gtgtcttcct ttgccactca 7141 atcttcaagg ccaactctgg ccacaaccac tggttcctca catggcacag cctcatcaaa 7201 ttcaactcgc agcacaagcc tctcccaatc aacggtctcc agatctacat ctaggactgg 7261 tgagtgggtt agagatcaaa atagaaattt ggaaccctac atgcatggtg ccttacagac 7321 agcctttgtc accccacctt ccagcagggc atctgacggg acagtctcaa ccgtccctaa 7381 aggtgttttg gactcctgga cacctgcgtt taacacccgc aggcagccgc tttttgcaca 7441 cctccgtaag aggggggagt cacaagctta gtgaaaaggt gaaaatttat t //