Typing tool
|
Complete norovirus genomes
LC726078 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..4777 ORF2: 4758..6380 ORF3: 6380..7186LOCUS LC726078 7197 bp RNA linear VRL 26-AUG-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1243F/Tokyo/2022/Japan POL, VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1, capsid protein VP2, partial and complete cds. ACCESSION LC726078 VERSION LC726078.1 KEYWORDS . SOURCE Norovirus GII.4 ORGANISM Norovirus GII.4 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Suzuki,J. and Sadamasu,K. TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April 2021-March 2022 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7197) AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,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..7197 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/1243F/Tokyo/2022/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2022-02" gene <1..4777 /gene="POL" CDS <1..4777 /gene="POL" /note="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BDQ32350.1" /translation="SVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGV HKPPAAISLAKVELAPLSLFWRPVYAPQYLISPDTLRRLHGESFPYTAFDNNCYAFCC WVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTR PIKDIIGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGD YELQGPEDLAVELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILK LVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEE EKARKLSTKSASPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIG KTHLARELAKKIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALR LQELADTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVY AEAPEVEKAKRDFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLT TGSLIARASGLLHERLDEYELQGSALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGK QLKDVKTMSDLKQALKNIAIKKCQIVYNGGTYTLEADGKGSVRVDKVQSATVQTNNEL TGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTE EMANKDGCLKPKDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYK RIREERNGKYSIEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKE ERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGS GWGFWVSPSLFITSTHVIPQGVKEFFGVPVKQIQIHKSGEFCRLRFSKPIRTDVTGMI LEEGAPEGTVATLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSM DLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGT YCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRD QLKPFTEPRGRPPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPH HMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKK RLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHY DADYSRWDSTQQRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEG LPSGVPCTSQWNSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDP ERLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILR QMYWTRGPNHEDPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGM DFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 4758..6380 /gene="VP1" CDS 4758..6380 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDQ32351.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHTTGSHHYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6380..7186 /gene="VP2" CDS 6380..7186 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDQ32352.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTATYNAGRFSTPQPSGALPGRANLRDAAPARGSSSKSS SSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 cagtgtcccc ccactcaacc aaagggagag cagggacgcc aaggagccac taactggaac 61 aatcattgaa atgtgggatg gagaaatcta ccattacggc ctgtacgtgg aacgaggtct 121 tatacttggt gtgcacaagc caccagcagc aatcagcctc gccaaggtcg agttggcacc 181 gctctctttg ttctggagac ctgtatacgc cccccagtac cttatctctc cagacactct 241 taggagatta catggagagt cattccccta cactgcattt gacaacaatt gctacgcctt 301 ttgttgttgg gtattagacc taaacgactc atggctaagc aggagaatga ttcagagaac 361 aacaggcttc ttcaggccgt accaggattg gaacaggaaa cccctcccca ctatggatga 421 ttccaaatta aagaaggtag ccaacatatt cttgtgcact ttgtcttcac tattcaccag 481 acccattaag gacataatag ggaagttgag acctctcaac atccttaata ttctggctac 541 atgtgattgg accttcgcag gcatagtgga atccttaata ctcttggcag aactctttgg 601 agttttctgg acacccccag atgtgtctgc gatgatcgcc cccttgctag gtgattatga 661 actgcaagga cccgaggacc ttgcagtgga actggtccca atagtgatgg gggggatagg 721 tttggtgcta ggatttacca aagagaaaat cggaaagatg ctgtcatccg ctgcgtccac 781 tttaagagct tgtaaagacc ttggtgcata cggactggaa atcttaaaat tggtcatgaa 841 gtggttcttc ccaaagaaag aggaagcaaa tgaactggct atggtgagat ccatcgagga 901 tgcagtacta gacctcgagg cgattgaaaa caaccacatg accaccctgc tcaaagacaa 961 agacagcttg acaacctaca tgagaaccct tgaccttgag gaggagaaag ccagaaaact 1021 ctcaaccaaa tctgcttcac ccgatattgt gggtacaatt aactctcttc tggcaaggat 1081 cgctgctgca cgctccctag tgcatcgggc gaaagaagag ctctccagca ggccgagacc 1141 tgtcgttgta atgatatcgg gaagaccagg gatagggaaa actcaccttg ccagggagct 1201 ggccaagaag atcgcggcct ccctcacagg ggaccagcgt gtgggcctta tcccacgcaa 1261 tggtgtcgac cactgggacg catacaaggg cgaaagagtt gttctatggg acgactatgg 1321 aatgagcaac cccatccatg atgccctcag attgcaggag cttgctgata cttgccccct 1381 cacgctaaat tgtgacagaa ttgagaacaa gggaaaagtc tttgacagcg atgccataat 1441 tatcaccacc aacctggcca acccagcacc actggattat gtcaactttg aagcgtgctc 1501 gagacgcatt gatttcctcg tgtacgcaga agcccctgag gtggagaagg cgaagcgcga 1561 cttcccaggt caacctgaca tgtggaagaa cgctttcagt cctgacttct cacacataaa 1621 actgtcattg gctccacaag gcggttttga caaaaacggc aacaccccgc atggaaaagg 1681 ggtcatgaag accctcacca ctggctccct catcgcccga gcatcagggt tgctccatga 1741 gaggctagat gagtatgaat tgcaaggttc agccctcacc actttcaact ttgaccgcaa 1801 caagatactt gcctttagac agcttgctgc tgaaaacaag tatgggctga tggacacaat 1861 gagagttgga aaacagctta aggatgtcaa gacaatgtca gacctcaaac aagcactcaa 1921 gaacatcgcg atcaagaagt gccagatagt gtacaatggt ggcacctaca cacttgaggc 1981 tgatggcaag ggcagtgtga gagttgacaa agtgcaaagt gccactgtgc agaccaacaa 2041 tgaactaacc ggtgccctac accacctaag atgcgctaga atcaggtact atgttaagtg 2101 cgtccaggag gcactgtatt ccatcatcca aatcgctggg gctgcgttcg tcaccacgcg 2161 catcgctaag cgcatgaata tacagaatct ctggtccaag ccacaggtgg aagacacaga 2221 agagatggcc aacaaagatg gttgcctaaa acccaaagat gatgaagagt ttgtcgtttc 2281 atccgacgac atcaaaactg agggcaagaa agggaagaac aagtccggcc gtggcaagaa 2341 acatacagcc ttttcaagta aagggctcag tgatgaggag tacgatgagt acaaaagaat 2401 cagagaagaa aggaatggta agtactctat agaagagtac cttcaggaca gagacaggta 2461 ctacgaggag gtggccattg ccagggcaac cgaagaggac ttctgtgaag aagaagaggc 2521 caaaatccgg cagaggattt tcagaccaac aaggaaacaa cgcaaagaag agagggcctc 2581 tctcggcttg gtcacaggct ctgaaatcag gaagagaaac ccagaagact tcaaacccaa 2641 gggaaagctg tgggctgatg atgacagaag tgttgactac aatgagaaac tcaactttga 2701 ggccccacca agcatctggt cgcggatagt caactttggt tcaggctggg gcttctgggt 2761 ctcccccagt ctgtttataa catcaaccca tgttataccc cagggtgtaa aagagttttt 2821 cggagtccct gtcaagcaaa tccagataca caagtcaggt gaattctgcc gattgagatt 2881 ctcaaagcca atcagaaccg atgtgacggg catgattcta gaagaaggtg cgcccgaggg 2941 gaccgtggcc acactgctca tcaagagacc aactggagag ctcatgcccc tggcagccag 3001 aatggggacc catgcaacca tgaaaattca ggggcgcaca gttggagggc aaatgggtat 3061 gctcctgaca ggatccaacg ccaagagtat ggacctaggc acaacaccag gcgactgcgg 3121 ctgcccctac atctacaaga gggggaatga ctacgtggtc ataggggtcc atacggccgc 3181 tgcccgcgga ggaaacactg tcatatgtgc cacccaggga agtgagggag aggctacact 3241 cgaaggaggt gatagtaaag ggacatactg tggcgcgcca atcttgggcc cagggagcgc 3301 tccgaagctc agcaccaaga ctaagttttg gagatcatcc acaacaccac tcccacctgg 3361 cacctacgaa ccagcctacc tcggtggcaa agaccctaga gtcaaaggtg gcccttcatt 3421 gcaacaagtt atgagggacc agctgaagcc attcacagaa cccagaggca gaccaccaag 3481 accaaatgtg ttggaagctg ccaagaaaac catcatcaat gtccttgagc aaacaattga 3541 tccaccccaa aaatggtcat tcgcgcaagc ttgcgcatcc cttgacaaaa ccacctccag 3601 cggccacccg caccacatgc ggaaaaacga ctgttggaat ggggagtcct tcacaggaaa 3661 attggctgac caagcctcca aggccaacct aatgtttgaa gagggaaaga acatgactcc 3721 agtctacaca ggtgcactta aagatgagtt ggtaaagacc gataaagttt atggtaaggt 3781 caagaagagg cttctgtggg gttcagacct ggcgaccatg atacggtgcg cccgagcttt 3841 tggaggcctc atggatgaac tcaaggcaca ctgtgtcacg ctccctgtca gagttggtat 3901 gaacatgaat gaggatggcc ccatcatctt cgagaagcac tccagatata gatatcacta 3961 tgatgctgac tattcccgat gggactcaac acaacaaagg gatgtgctag cagcagcact 4021 agaaatcatg gttaagttct ctccagaacc acacctggcc cagatagttg cagaagacct 4081 cctctctcct agcgtgatgg atgtgggtga ctttcaaata tcaataagtg agggtctccc 4141 ctctggggtg ccttgtacct cccagtggaa ttccatcgcc cactggctcc tcactctgtg 4201 tgcactctct gaagtcacgg acctgtcccc tgatatcatt caggccaact cccttttctc 4261 cttttatggt gatgatgaga ttgtaagcac agacataaag ttggacccag agaggctgac 4321 agcaaaactc aaggagtacg ggctgaaacc aacccgcccc gacaaaactg aaggacccct 4381 cgttatctct gaagacctgg atggtctgac attcctccgg agaactgtga cccgtgaccc 4441 agctggttgg tttggaaaat tggaacaaag ttcaattctt aggcaaatgt actggaccag 4501 gggtcccaac catgaagatc catttgaaac aatgatacca cactcccaaa gacccataca 4561 gttgatgtcc ttgctgggcg aggctgcact ccacggcccg gcattctaca gcaaaattag 4621 caaattagtc attgcagagt tgaaggaagg tggcatggat ttttacgtac ccagacaaga 4681 gccaatgttc agatggatga gattctcaga tctgagcacg tgggagggcg atcgcaatct 4741 ggctcccagt tttgtgaatg aagatggcgt cgagtgacgc caacccatct gatgggtccg 4801 cagccaacct cgtcccagag gtcaacaatg aggttatggc tctggagccc gttgttggtg 4861 ccgccattgc ggcgcctgta gcgggccagc aaaatgtaat tgacccctgg attagaaaca 4921 attttgtaca agcccctggt ggagagttca cagtgtcccc tagaaacgct ccaggtgaaa 4981 tactatggag cgcgcccttg ggccctgatc taaatcccta cttatctcat ttggccagaa 5041 tgtacaatgg ttatgcaggt ggttttgaag tgcaggtaat tctcgcgggg aacgcgttca 5101 ccgccgggaa ggtcatattt gcagcagtcc caccaaattt tccaactgaa ggcttgagcc 5161 ccagccaggt cactatgttc ccccatatag tagtagatgt taggcaatta gaacctgtgt 5221 tgataccctt acccgatgtt aggaataatt tctatcatta taatcaatca aatgacccca 5281 ctatcaagct gatagcaatg ttgtacacac cacttagggc taataatgct ggggatgatg 5341 tcttcacagt ttcttgccga gttctcacga ggccatcccc cgattttgac ttcatatttc 5401 tagtgccacc cacagttgag tcaagaacta agccattctc tgtcccagtt ttaactgttg 5461 aggagatgac caattcaaga ttccccattc ctttggaaaa gttgttcacg ggtcccagca 5521 gtgcctttgt tgtccaacca caaaacggta ggtgcacgac tgatggcgtg ctcctaggca 5581 ccacccaact gtctcctgtc aacatctgca ccttcagagg agatgtcacc cataccacag 5641 gtagtcacca ctacacaatg aatttggctt ctcaaaattg gagcaattac gacccaacag 5701 aagaaattcc agcccctcta gggactccag actttgtggg gaagattcaa ggcatgctta 5761 cccaaaccac aaggacagat ggctcaacac gcggccacaa agccacagtg tacactggga 5821 gcgccgactt tgccccaaaa ctgggtagag ttcaatttga aactgacaca aacaatgatt 5881 ttgaagctaa ccaaaacaca aagttcaccc cagttggtgt catccaagat ggtggcacca 5941 cccaccgaaa tgaaccccaa cagtgggtgc tcccaagtta ctcaggcagg aacactccta 6001 atgtgcatct ggcccccgct gtagccccca cttttccggg cgagcaactc ctcttcttca 6061 gatccaccat gcccggatgc agcgggtacc ccaacatgga tttggattgt ctgctccccc 6121 aggaatgggt gcagtacttc taccaagagg cagccccagc acaatctgat gtggctctgc 6181 taaggtttgt gaatccagac acaggtaggg ttttgtttga atgtaagctt cacaagtcag 6241 gttatgttac agtggctcac actggccaac atgatttggt tatccccccc aatggttatt 6301 ttaggtttga ctcctgggtc aaccagtttt acacgcttgc ccccatggga aatggagcgg 6361 ggcgtagacg tgcactataa tggctggagc tttctttgct ggattggcat ctgatgtcct 6421 tggctctggg cttggttccc ttatcaatgc tggggctggg gccatcaacc aaaaagttga 6481 gtttgaaaat aacagaaaac tgcaacaagc atccttccaa tttagcagca atctacaaca 6541 ggcttccttt caacatgaca aagagatgct ccaagcacaa attgaggcta ccaaaaggtt 6601 acaacaggaa atgatgaaag ttaaacaggc aatgctctta gagggtgggt tctctgagac 6661 agatgcagcc cgcggggcaa tcaacgcccc tatgacaaaa gctttggatt ggagcgggac 6721 aaggtactgg gctcctgatg ctaggactgc aacatacaat gcaggtcgct tttccacccc 6781 ccaaccatcg ggggcgctgc caggaagagc taaccttagg gatgctgccc ccgctcgggg 6841 ttcctctagt aagtcttcta gttcttctac tgctacttct gtgtactcaa atcaaactat 6901 ttcaacgaga cttggttcta cagctggttc tggtaccagt gtctcgagcc tcccgtcaac 6961 tgcaaggact aggagctggg ttgaggatca aagtaggaat ttgtcacctt tcatgagggg 7021 ggcccacaac atatcgtttg tcaccccacc atctagcaga tcctctagcc aaggcacagt 7081 ctcaaccgtg cctaaagaga ttttggactc ctggactggc gctttcaaca cgcgcaggca 7141 gccactcttc gctcacattc gtaagcgagg ggagtcacgg gtgtaatgtg aaaagac //