Typing tool
|
Complete norovirus genomes
LC726074 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5076 ORF2: 5057..6679 ORF3: 6679..7476LOCUS LC726074 7501 bp RNA linear VRL 26-AUG-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1143F/Tokyo/2022/Japan POL, VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1, capsid protein VP2, partial and complete cds. ACCESSION LC726074 VERSION LC726074.1 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Suzuki,J. and Sadamasu,K. TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April 2021-March 2022 JOURNAL Unpublished REFERENCE 2 (bases 1 to 7501) AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,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..7501 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/1143F/Tokyo/2022/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2022-01" gene <1..5076 /gene="POL" CDS <1..5076 /gene="POL" /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BDQ32338.1" /translation="SAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPPPRET PPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTAFSV PPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAP LSLFWRPVYTPQYLVSPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILN ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPV VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL AMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPDIV GTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASL TGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ PDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL DEYELQGPTLATFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALK NIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIRYYV KCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKGGCLKPKDDEE FVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL QDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKR NPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH VIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIK RPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK RGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLS TKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPN VLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGK LADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMVRCAR AFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVL AAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAH WLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTR PDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGPNHEDPFET MIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRF SDLSTWEGDRNLAPSFVNEDGVE" gene 5057..6679 /gene="VP1" CDS 5057..6679 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDQ32339.1" /translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGGVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6679..7476 /gene="VP2" CDS 6679..7476 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDQ32340.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGAMLGRRDAVPARGSSSKSSNSS TATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNISFV TPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tccgctgccg ctgttgccaa cagcaacaac gacatcgcaa aatcttcaag tgacggtatg 61 ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa acagccgccc 121 ccgagggaaa caccacccag gcccccgcga ccacccacgc cagaattggt caaaaagatc 181 cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacaacgc caaagatggc 241 gtttccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa cacggcgttc 301 agtgtccccc cactcaacca aagggagagc agggacgcca aggagccact aactggaaca 361 atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga acgaggtctt 421 gtacttggtg tgcacaagcc accagcagcc atcagcctcg ctaaggtcga gctggcaccg 481 ctctctttgt tctggaggcc tgtatacacc ccccagtacc tcgtctctcc agacactctt 541 aggagattac atggagagtc attcccctac actgcttttg acaacaattg ctacgccttt 601 tgttgttggg tgttagacct aaacgactca tggctaagca ggagaatgat tcagagaaca 661 acaggcttct tcaggccgta ccaggattgg aacaggaaac ccctccccac tatggatgac 721 tccaaattaa agaaggtagc caacatattc ttgtgcactt tgtcttcact attcaccagg 781 cccatcaagg acataatagg gaagttgaaa cctctcaaca tccttaatat cctggctaca 841 tgtgattgga ccttcgcagg catagtggaa tccttaatac tcttggcaga actctttgga 901 gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgcttgg tgattatgaa 961 ctgcaaggac ccgaggacct tgcagtggaa ctggtcccag tagtgatggg ggggataggt 1021 ttggtgctag gatttaccaa agagaagatc ggtaaaatgt tgtcatccgc tgcatccact 1081 ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt ggtcatgaag 1141 tggttcttcc caaagaaaga ggaagcaaat gaactggcca tggtgagatc catcgaggat 1201 gcagtactag acctcgaggc aattgaaaac aaccacatga ccaccctgct caaagacaaa 1261 gacagcttga caacctacat gagaaccctt gaccttgagg aggagaaagc cagaaaactc 1321 tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca actctcttct ggcaagaatc 1381 gctgctgcac gctccctagt gcatcgggcg aaagaagagc tctccagcag gccgagacct 1441 gtcgttgtaa tgatatcggg aagaccagga atagggaaaa ctcaccttgc cagggagctg 1501 gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggccttat cccacgcaat 1561 ggtgtcgacc actgggacgc atacaagggc gaaagggttg tcctatggga cgactatgga 1621 atgagcaacc ccatccatga tgcccttagg ttgcaggagc ttgctgacac ttgccccctc 1681 acgctaaatt gtgacagaat tgagaacaaa ggaaaagtct ttgatagtga tgccataatt 1741 atcaccacca acctggccaa cccagcacca ctagattatg tcaattttga agcgtgctcg 1801 agacgcattg atttcctcgt gtacgcagaa gcccctgagg tggagaaggc aaagcgcgac 1861 ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc acacataaaa 1921 ctgacattgg ctccacaggg tggttttgat aagaacggca acaccccgca tggaaaaggg 1981 gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt actccatgag 2041 aggctagatg aatatgaatt gcaaggccca accctcgcca ctttcaactt tgaccgcaac 2101 aagatactcg cttttagaca gcttgctgct gaaaacaagt atgggctgat ggacacaatg 2161 agagttggaa aacagctcaa ggatgtcaag actatgtcag acctcaaaca agcactcaag 2221 aacatcgcga tcaagaagtg ccagatagtg tacaatggtg gcacctacac acttgaggct 2281 gatggcaagg gcagtgtgaa agttgataaa gtgcagagtg ctactgtgca gaccaacaat 2341 gaactagccg gtgccctaca ccacctaaga tgcgctagaa tcagatacta tgttaagtgc 2401 gtccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt cacaacgcgc 2461 atcgctaagc gcatgaatat acagaatctc tggtccaagc cgcaggtgga agacacagaa 2521 gagatggcca acaaaggtgg ttgcctaaaa cccaaagatg atgaagagtt tgtcgtttca 2581 tccgacgaca tcaagactga gggcaagaaa gggaagaaca agtccggccg tggcaagaag 2641 cacacagcct tttcaagtaa agggctcagt gatgaggagt acgatgagta caagagaatc 2701 agagaagaaa ggaatggtaa gtactccata gaagagtacc ttcaggacag agacaggtac 2761 tacgaggagg tggccattgc cagggcaacc gaagaggact tctgtgaaga agaagaggcc 2821 aaaatccggc agaggatttt cagaccaaca aggaaacaac gcaaagaaga gagggcttct 2881 cttggcttgg tcacgggttc tgaaatcagg aagagaaacc cagaagactt caaacccaag 2941 ggaaagctgt gggctgatga cgacagaagt gttgactaca atgaaaaact caactttgag 3001 gccccgccaa gcatctggtc gcggatagtc aactttggtt caggctgggg cttctgggtc 3061 tcccccagtc tgtttataac atcaacccat gtcatacccc aaggtgcaaa ggagttcttc 3121 ggagtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg attgagattt 3181 ccaaagccaa tcagaaccga tgtgacgggc atgattctag aagaaggtgc gcccgagggg 3241 accgtggcca cactgcttat caagagacca actggagagc tcatgcctct ggcagccaga 3301 atggggaccc atgcaaccat gaaaatccag gggcgcacag ttggagggca aatgggtatg 3361 ctcctgacag gatctaacgc caagagtatg gacttgggca caacaccagg cgactgcggc 3421 tgcccctaca tctacaagag ggggaatgac tacgtggtca taggggtcca tacggctgct 3481 gcccgtggag gaaacactgt catatgtgcc acccagggga gtgagggaga ggccacactt 3541 gaaggaggtg acagcaaagg gacatactgt ggcgcgccaa tcttaggccc agggagcgct 3601 ccgaagctca gcactaagac taagttttgg agatcatcca caacgccact cccacctggc 3661 acctacgaac cagcctacct cggtggcaaa gaccccagag tcaaaggtgg cccttcattg 3721 caacaagtta tgagggacca actgaagcca ttcacagaac ccagaggaaa accaccaaga 3781 ccaaacgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca aacaattgat 3841 ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac cacctccagc 3901 ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcctt cacaggaaag 3961 ttggctgacc aagcctccaa ggccaaccta atgtttgaag agggaaagaa catgactcca 4021 gtctacacag gtgcacttaa agatgagttg gtgaagaccg ataaagtgta tggtaaggtc 4081 aagaagaggc ttttatgggg ttcagatctg gcgaccatgg tacggtgcgc ccgagctttt 4141 ggaggcctca tggatgaact caaggcacac tgtgtcacac tccctgtcag agttggtatg 4201 aacatgaatg aggatggccc catcatcttc gagaagcact ccaggtatag atatcattat 4261 gatgctgact attcccggtg ggactcaaca caacaaaggg atgtgctggc agcagcacta 4321 gagatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc agaagacctc 4381 ctctccccta gcgtgatgga tgtgggtgac tttcaaatat caataagtga gggtctcccc 4441 tctggggtac cttgcacctc ccagtggaat tccatcgccc actggctcct cactctgtgt 4501 gcactctctg aagtcacgga cctgtcccct gatatcattc aggctaactc ccttttctcc 4561 ttctatggtg atgatgagat tgtaagcaca gatataaagt tggacccaga gaggctaaca 4621 gcaaagctca aggagtacgg gctgaaacca acccgccccg acaagactga aggacccctt 4681 gtcatctctg aagacctgga tggtctgaca ttcctccgga gaactgtaac ccgtgatcca 4741 gctggctggt ttggaaaatt ggaacaaggt tcaattctta ggcagatgta ctggaccagg 4801 ggccccaacc acgaagaccc atttgaaaca atgataccac actcccaaag accaatacaa 4861 ttgatgtcct tgctgggcga ggctgcactc cacggcccgg cattctacag caaaattagc 4921 aaattagtca ttgcagagtt gaaggaaggt ggcatggatt tttacgtgcc cagacaagag 4981 ccaatgttca gatggatgag attctcagat ctgagcacgt gggagggcga tcgcaatctg 5041 gctcccagtt ttgtgaatga agatggcgtc gagtgacgtc aacccatctg atgggtccgc 5101 agccaacctc gtcccagagg tcaacaatga ggttatggct ctggagcccg ttgttggtgc 5161 cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaacaa 5221 ttttgtacaa gcccctggtg gagagttcac agtatcccct agaaacgctc caggtgaaat 5281 actatggagc gcgcccttgg gccctgatct aaacccctac ttgtctcatt tggccagaat 5341 gtacaatggt tatgcaggtg gttttgaagt gcaggtaatc ctcgcgggga acgcgttcac 5401 cgccgggaag gtcatatttg cagcagtccc accaaatttc ccaactgaag gcttgagccc 5461 cagccaggtc actatgttcc cccatatagt agtagatgtc aggcaattag aacctgtgtt 5521 gattccctta cccgatgtta ggaataattt ctatcattac aatcaatcaa atgaccccac 5581 cattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg gggacgatgt 5641 cttcacggtt tcttgtcgag ttctcacgag accatccccc gattttgact tcatatttct 5701 agtgccaccc acagttgagt caagaactaa accattctct gtcccagttc tgactgttga 5761 ggagatgacc aattcaagat tccccatccc tttggaaaag ttgttcacgg gtcccagcag 5821 cgcctttgtt gtccaaccac aaaatggtag gtgcacgact gatggcgtgc tcctaggcac 5881 cacccaactg tctcctgtca acatctgcac ctttagagga ggtgtcacac atatcacagg 5941 cagtcataac tatacaatga atttggcttc tcaaaattgg agcaactatg acccaacaga 6001 agaaatccca gcccctctag gtactccaga ctttgtgggg aagatacaag gcatgctcac 6061 ccaaaccaca aggacagatg gctcaacacg cggccacaaa gccacagtgt acactgggag 6121 cgccgacttt gctccaaaac tgggtagggt ccaatttgaa actgacacaa acaatgattt 6181 tgaggctaac caaaacacaa agttcacccc agttggtgtc atccaagatg gtggcaccac 6241 tcatcgaaat gaaccccaac agtgggtgct cccaagttac tcaggcagga acactcctaa 6301 tgtgcatctg gcccccgctg tggcccccac ttttccaggt gagcaactcc ttttctttag 6361 atccaccatg cccggatgca gcgggtaccc caacatggat ttggattgtt tgctccccca 6421 ggaatgggtg cagtacttct accaggaggc agccccagca caatctgatg tggctctgct 6481 aagatttgtg aatccagaca caggtagggt tttgtttgaa tgtaagcttc ataaatcagg 6541 ttatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca acggttattt 6601 taggtttgat tcctgggtca accagttcta cacacttgcc cccatgggaa atggagcggg 6661 gcgtagacgt gcactataat ggctggagct ttctttgctg gattggcatc tgatgttctt 6721 ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgag 6781 tttgaaaata atagaaaatt gcagcaagca tccttccaat ttagcagcaa tctacaacag 6841 gcttcctttc aacatgataa agagatgctt caagcacaaa ttgaggctac caaaaggtta 6901 caacaggaaa tgatgaaagt taagcaggca atgctcctag aaggtggatt ctctgagaca 6961 gatgcagccc gcggggcaat caacgcccct atgacaaaag ccttggactg gagcgggaca 7021 aggtactggg ctcctgatgc taggactaca acatacaatg caggccgctt ctccaccccc 7081 caaccatcgg gggcgatgct aggaagaagg gatgctgtcc ctgctcgggg ttcctctagt 7141 aagtcttcta attcttctac tgcaacttct gtgtattcaa atcaaacaat ttcaacgaga 7201 cttggttcta cagctggttc tggtaccagt gtctcgagct tcccgtcaac tgcaaggact 7261 aggagctggg ttgaggacca aagtaggaat ttgtcacctt tcatgagggg ggcccacaac 7321 atatcgtttg tcaccccacc atctagcagg tcctctagcc aaggcacagt ctcaaccgtg 7381 cctaaagagg ttttggactc ctggactggc gctttcaaca cgcgcaggca gccactcttc 7441 gctcacattc gtaagcgagg ggagtcacgg gtgtaatgtg aaaaggcaaa attgattatc 7501 t //