Typing tool
|
Complete norovirus genomes
LC726089 | GII.2 | ||
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GII.P16 |
ORF1: 1..5083 ORF2: 5064..6692 ORF3: 6692..7471LOCUS LC726089 7516 bp RNA linear VRL 26-AUG-2022 DEFINITION Norovirus GII.2 Hu/GII.2[P16]/710F/Tokyo/2021/Japan POL, VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1, capsid protein VP2, partial and complete cds. ACCESSION LC726089 VERSION LC726089.1 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Suzuki,J. and Sadamasu,K. TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April 2021-March 2022 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7516) AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,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..7516 /organism="Norovirus GII.2" /mol_type="genomic RNA" /strain="Hu/GII.2[P16]/710F/Tokyo/2021/Japan" /host="Homo sapiens" /db_xref="taxon:490039" /country="Japan:Tokyo" /collection_date="2021-10" gene <1..5083 /gene="POL" CDS <1..5083 /gene="POL" /note="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BDQ32383.1" /translation="DATVAVACNNNNDKEKSSGEGLFTNISSTLKKTLGARPKQPAPR DKTQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANT AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV ELTPLSLYWRVVYTPQYLIPPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR RMVQRTTGFFRPYQEWNRKPLPTMDDTKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL NVLNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERMDEFELQGPTITTFNFDRNRIAAFRQLAAENKYGLVDTIKVGNQLKGVKTMEELK QAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNETETKEEAPKSED DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS THVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFWNGETFT GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP TRPDKTEGPLIVSEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM RFSDLSTWEGDRNLAPNFVNEDGVE" gene 5064..6692 /gene="VP1" CDS 5064..6692 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDQ32384.1" /translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT PVGLNDIEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ" gene 6692..7471 /gene="VP2" CDS 6692..7471 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDQ32385.1" /translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQNRPSSGSSVSSFATQSSRPTLTTTT GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA" ORIGIN 1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaagaaaaat cttcaggtga 61 aggcttattt acaaatattt cctccacctt aaagaaaacc ctcggggcta ggcccaaaca 121 gcctgccccg agagacaaaa cacaaaagcc cccaagacca ccaactcccg agttggtcaa 181 gaggataccc cctcctccac ccaacggcga agaagaagaa gagccagtca ttaggtatga 241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc 301 caacacagca ttcagtgttc caccactgag cttgagagaa aacagggagg ccaaggagcc 361 gctaacaggg gcaatactag agatgtggga tggagagata taccactatg gtctgtacgt 421 ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagca tggcaagagt 481 ggagctgacg ccgttgtcat tgtactggcg tgtggtgtac actccccaat acctcatccc 541 ccctgaaacc ctcaggaggc tcaacggaga ggcattccct tacaccgcct ttgacaacaa 601 ctgctatgcc ttttgctgct gggtgttaga cctcaatgac tcatggctta gcaggaggat 661 ggtacaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc 721 taccatggat gacaccaaaa ttaagaaggt agcaaatata ttcctatgtt cattgtccac 781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattga acgtactgaa 841 tatcctggca acgtgtgact ggacttttgc cggaatagtg gagtctctga tattacttgc 901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact 961 cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac ctgtggtaat 1021 gggggggatt ggtttggtgt tgggattcac caaagagaaa attggcaaaa tgttgtcctc 1081 agcagcatca acactcaggg cttgcaaaga tcttggtgcc tatggcttag agatactcaa 1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ctatggtgag 1201 ggccatagag gatgctgtac tagaccttga ggcaatagaa aataaccaca tgacaaccct 1261 gttgaaagat aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa 1321 agccaggagg ttgtccacaa aatccgcatc ccctgacata gttgggacaa tcaacgccct 1381 gctggctcga atagcagcgg ccagatcatt agtccacagg gccaaggaag agctatctag 1441 taggataagg ccagtagttg ttatgatatc tggcaagcca ggaataggca aaactcatct 1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaaa gagtcggact 1561 cataccacga aacggtgtgg accattggga tgcatacaaa ggtgagagag tcgtgctgtg 1621 ggacgactat ggcatgagta accctattca tgatgctctt cgcatacaag aattggctga 1681 tacgtgtccc cttaccttaa attgtgacag aattgaaaat aagggaaaag tttttgacag 1741 tgaagtcata ataattacaa caaaccttgc caatccagcc ccacttgatt atgtcaactt 1801 tgaggcctgt tccaggagaa ttgacttcct ggtgtacgct gaggcaccag aagtagagaa 1861 ggcaaaacgg gactttcctg gtcagccaga tatgtggaag gatgccttca agccggactt 1921 ttcacacatc aagctacagc ttgcacccca gggcggcttt gacaagaatg gcaacacccc 1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gtgcatcagg 2041 cctgctgcat gagaggatgg atgaatttga actccaaggc cccacaatca ctaccttcaa 2101 tttcgaccga aacagaatcg cggcattcag acaattggct gcagaaaaca agtatggatt 2161 ggtggatacc ataaaagttg gtaatcaatt aaaaggagtg aaaaccatgg aagaactcaa 2221 acaagcaatc aggaatgtga ccatcaagag gtgccggatc atctacggtg gttccacgta 2281 tgaccttgaa tctgatggta agggcaaagt tttggtggaa aaggtcaaga acacctctgt 2341 acagaccaat aacgagttgg ctggggccct gcaccatctc aaacatgccc gaatcaggta 2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt 2461 tgtcaccacg cgcattgcac gccgcatgaa tatacaagaa ctctggtcga agccacaact 2521 agatcaaaat gaaacagaga ctaaggaaga ggcccccaag tcagaagatg acgagttcat 2581 catatcttct aaggacatta aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg 2641 caagaaacac actgcattct ccagcaaagg cttgagcgat gaggagtatg acgagtacaa 2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga 2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga 2821 ggagattaaa atccgtcaga gaattttccg tcccaccagg aaacaaagaa aggaagagag 2881 ggccacatta gggctagtaa caggttcaga aatcagaaaa agaaaccctg atgacttcaa 2941 acccaaaggg aagctgtggg ccgatgacaa caggagtgtt gactacaatg agaaactgga 3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggctctg gctggggctt 3061 ctgggtgtca ccaagccttt tcataacatc aactcatgta atccccgcag gcataacaga 3121 agcatttggg gtctccatca aacaaattca gatccacaaa tcaggcgaat tttgccgatt 3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc 3241 tgagggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc 3301 agccagaatg ggaacacacg caaccatgaa aattcaaggc cgcatggttg gcggacagat 3361 gggtatgttg ctcactggat caaatgctaa aggaatggac ttaggtacaa ctcctggtga 3421 ctgtggctgt ccttacatct ataaaagggg caatgactat atagtcattg gggtgcacac 3481 tgcagcagcc cgtggtggaa acactgtcat ctgtgccaca cagggaagtg agggtgaggc 3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg 3601 gggtgcacca aaattgagca ccaaaaccaa attttggagg tcatcgaaca cgccccttcc 3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc 3721 ttccctgcag caggtgatga gagaccagtt gaagccattc actgaaccca ggggcaaacc 3781 tccaagacca agtgtattgg aagcagccaa acaaaccatc atcaatgtcc tcgaacaaac 3841 cctggaccct ccacaaaaat ggacatacgc acaggcttgt gcctcacttg acaaaaccac 3901 ctccagcggg tacccccacc acgtccgaaa gaatgaattc tggaatggtg agaccttcac 3961 tggtaaactg gcagaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat 4021 gacaccagtg tacacagcag ctctcaagga cgagctagtc aagactgaga aaatctatgg 4081 aaagatcaag aagagactgc tctggggctc tgacttgtcc accatgatcc ggtgcgctag 4141 gtcatttggt gggcttatgg acgagatgaa ggcacactgc atatcactcc cagtccgagt 4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacattcca gatacaaata 4261 tcactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag ttctagcagc 4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga 4381 ggatctgctg gcccctagtg tagtagatgt aggagacttt aaaattacaa taaatgaagg 4441 gctcccttct ggtgtgccat gcacttctca atggaactcc atcgcgcact ggctgctaac 4501 tctctgtgcc ttgtctgaag tcaccaaact gtcccctgac attatacagg caaattccat 4561 gttctcattt tacggtgatg acgagatcgt cagcaccgac ataaaattgg accctgaaca 4621 gttgaccgcc aaattgaagg agtacggcct gaaaccaacc cgcccagaca aaaccgaggg 4681 acccctgatt gtcagtgaag atttgaacgg tctcactttc ctccgaagga cggtgactcg 4741 tgacccggct ggctggtttg gaaaactgga ccaaagctca attttgaggc agatgtactg 4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccatt cccaaagacc 4861 catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt tctacagtaa 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 cctaatggtg 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 ccaatgaaat tatatcagtg cagtgtcaaa atggtaggtg cacactggac ggggagctcc 5881 aagggacaac acaactccaa gtcagtggca tttgtgcttt caaaggtgag gtgaccgccc 5941 acttgcatga caatgatcac ctatataatg tcaccatcac aaacttgaat gggtcccctt 6001 ttgatccctc cgaggatatc cctgcccctt tgggtgtacc tgacttccag ggaagggttt 6061 ttggtatcat ctcccaaaga gataaacaca atagtcctgg gcacaatgaa ccagcaaaca 6121 ggggacacga cgctgtggtc cctacttaca cagcacagta cactccaaaa cttggacaaa 6181 ttcaaattgg cacatggcaa acagacgacc ttacagtcaa ccaaccagtc aaattcaccc 6241 cagttggact caatgacatt gaacacttta accaatgggt ggtccctagg tatgctggtg 6301 ccctaaacct caatacaaac cttgcccctt ctgttgctcc agtatttcca ggagagcgcc 6361 tgctcttctt cagatcatac attcccctca agggcggtta tggaaaccca gccattgatt 6421 gcctactacc acaggagtgg gtgcaacact tctatcagga agcagcccct tcaatgagtg 6481 aggtggccct cgtcagatac atcaacccgg acactggtcg ggcactgttt gaggccaagc 6541 tccacagagc tggtttcatg acggtctcga gcaacaccag tgccccagtg gttgtgcctg 6601 ccaacgggta cttcagattt gattcttggg tgaaccaatt ttattctctc gcccccatgg 6661 gaactgggaa tgggcgtaga agggttcaat aatggctgga gctttcgtag ctggtcttgc 6721 aggggacgtg ctcagcaatg ggcttagttc attaatcaat gcaggtgcta atgcaataaa 6781 tcagagggca gaattcgatt ttaatcaaaa attgcagcaa aattctttta atcatgataa 6841 ggagatgttg caggctcaga ttcaggcaac taagcagctg caggcagaca tgatggctat 6901 aaaacaaggg gtcttgaccg ctggcggctt ttcccctgct gatgcagcca gaggtgctgt 6961 aaacgcgccc atgacacagg cgctggattg gaatggcaca aggtattggg caccaaactc 7021 catgaggacc acatcttatt ctggaaaatt cacatcaact gccccagtga ggcaggctga 7081 cttccagcac acccaaaacc ggccttcgag tggctcctct gtgtcttcct ttgccactca 7141 gtcttcaagg ccaactctga ccacaaccac tggttcctca catggcacag cctcatcaaa 7201 ttcaactcgc agcacaagcc tctcccaatc aacggtctcc agagctacat ctaggactgg 7261 tgagtgggtt agagatcaaa atagaaattt ggaaccctac atgcatggtg ccttacagac 7321 agcctttgtc accccacctt ccagcagggc atctgacggg acagtctcaa ccgttcctaa 7381 aggtgttttg gactcctgga cacctgcgtt taacacccgc aggcagccgc tttttgcaca 7441 cctccgtaag aggggggagt cacaagctta gtgaaaaggt gaaaatttat ttaggattaa 7501 ttgattttac ctttta //