Typing tool
|
Complete norovirus genomes
LC699527 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5089 ORF2: 5070..6692 ORF3: 6692..7498LOCUS LC699527 7534 bp RNA linear VRL 12-MAR-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2047/Tokyo/2019/Japan genomic RNA, nearly complete genome. ACCESSION LC699527 VERSION LC699527.1 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., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M., Suzuki,J. and Sadamasu,K. TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney [P31] JOURNAL Unpublished REFERENCE 2 (bases 1 to 7534) AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E., Fujiwara,T., Miyake,H., Nagashima,M., Suzuki,J. and Sadamasu,K. TITLE Direct Submission JOURNAL Submitted (10-MAR-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..7534 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/2047/Tokyo/2019/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2019-12" gene <1..5089 /gene="POL" CDS <1..5089 /gene="POL" /note="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BDG75385.1" /translation="SNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPP PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNT AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK QALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARI RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA PKLSTKTKFWRSSTTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP PRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMI RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHED PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5070..6692 /gene="VP1" CDS 5070..6692 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDG75386.1" /translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6692..7498 /gene="VP2" CDS 6692..7498 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDG75387.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 gtctaacgac gcttccgctg ccgctgttgc caacagcaac aacgacatcg caaaatcttc 61 aagtgacggt gtgttttcta acatggctgt cacttttaag cgggccctcg gggcgcggcc 121 taaacagccg cccccgaagg aaataccacc cagacccccg cgaccaccca caccagaatt 181 ggtcaaaaag atccctcctc ccccacccaa cggggaggat gaactagtgg tctcttacaa 241 cgccaaagat ggcgtttccg gactgcctga gctcaccact gtcagacaac cggaagaaac 301 caacacggcg ttcagtgtcc ccccactcaa ccaaagggag agcagggacg ccaaggagcc 361 actaactggg acaatcattg aaatgtggga tggagaaatc taccattacg gcctgtacgt 421 ggaacgaggt cttatacttg gtgtgcacaa gccaccagca gccatcagcc tcgctaaggt 481 cgagctggca ccactctctt tgttctggag acctgtatac accccccagt accttatctc 541 tccagatact cttaggagat tacatggaga gtcattcccc tacactgcat ttgacaacaa 601 ttgctacgcc ttttgttgct gggtattaga cctaaacgac tcatggctaa gcaggagaat 661 gattcagaga acaacaggct tctttaggcc gtaccaggat tggaacagga aacccctccc 721 cactatggat gattccaaat taaagaaggt agccaacata tttttgtgca ctttgtcttc 781 actattcacc aggcccatca aggacataat agggaagttg aaacctctca acatccttaa 841 tattctggct acatgtgatt ggaccttcgc aggcatagtg gaatccttaa tactcttggc 901 agaactcttt ggagttttct ggacaccccc agatgtgtct gcgatgatcg cccccttgct 961 aggtgattat gaactgcaag gacccgagga ccttgcagtg gaactggtcc caatagtgat 1021 gggggggata ggtttggttc taggatttac caaagagaag atcggaaaga tgctgtcatc 1081 agctgcatcc actttaagag cttgtaaaga ccttggtgca tacggactgg aaatcttaaa 1141 attggtcatg aagtggttct tcccaaagaa agaggaagca aatgaactgg ctatggtgag 1201 atccatcgag gatgcagtac tagacctcga ggcaattgaa aacaaccaca tgaccaccct 1261 gctcaaagac aaagacagct tgacaaccta catgagaacc cttgaccttg aggaggagaa 1321 agccagaaaa ctctcaacca aatctgcttc acccgatatt gtgggcacaa tcaactctct 1381 tctggcaaga atcgctgctg cacgctccct agtgcatcgg gcgaaagaag agctctccag 1441 cagaccgaga cctgtcgttg taatgatatc gggaagacca gggataggga aaactcacct 1501 tgccagggag ctggccaaga agatcgcggc ctccctcaca ggggaccagc gtgtgggcct 1561 tatcccacgc aatggtgtcg accattggga cgcatacaag ggcgaaaggg ttgtcctatg 1621 ggacgactat ggaatgagca accccatcca tgatgccctt aggttgcagg agcttgctga 1681 cacttgcccc ctcacgctaa attgtgacag aattgagaac aaaggaaaag tctttgacag 1741 tgacgccata attatcacca ccaacctggc caacccagca ccactggatt atgtcaattt 1801 tgaagcgtgc tcgagacgca ttgatttcct cgtgtacgca gaagcccctg aggtggagaa 1861 ggcaaagcgc gacttcccag gtcaacctga catgtggaag aacgctttca gtcctgactt 1921 ctcacacata aaactgtcat tggctccaca gggtggtttt gacaagaacg gcaacacccc 1981 gcatggaaaa ggggtcatga agaccctcac cactggctcc ctcatcgccc gagcatcagg 2041 gttactccat gagaggctag atgaatatga attgcaaggc ccagccctca ccactttcaa 2101 ctttgaccgc aacaagatac ttgcttttag acagctcgct gctgaaaaca agtatgggct 2161 gatggacaca atgagagttg gaaaacagct caaggatgtc aagactatgt cagacctcaa 2221 acaggcactc aagaacatcg cgatcaagaa gtgccagata gtgtacaatg gtggcaccta 2281 cacacttgag gctgatggca agggcagtgt gaaagttgac aaagtgcaaa gtgccactgt 2341 gcagaccaac aatgaactag ccggtgccct acaccaccta agatgcgcta gaatcagata 2401 ctatgttaag tgcgtccagg aggcactgta ttccatcatc caaatcgctg gggctgcatt 2461 cgtcaccacg cgcatcgcta agcgcatgaa tatacagaat ctctggtcca agccacaggt 2521 ggaagacaca gaagagatgg ccaacaaaga tggttgccta aaacccaaag atgatgaaga 2581 gtttgtcgtt tcatccgacg acatcaaaac tgagggcaag aaagggaaga acaagtccgg 2641 ccgtggcaag aagcacacag ccttttcaag taaagggctc agtgatgagg agtatgatga 2701 gtacaagaga atcagagaag aaaggaatgg taagtactcc atagaagagt accttcagga 2761 cagagacagg tactacgagg aggtggccat tgccagggca accgaagagg acttctgtga 2821 agaggaggag gccaaaatcc ggcagaggat tttcagacca acaaggaaac aacgcaaaga 2881 agagagggct tctctcggct tggtcacagg ctctgaaatc aggaagagaa acccagaaga 2941 cttcaaaccc aagggaaagc tgtgggctga tgacgacaga agtgttgact acaatgagaa 3001 actcaacttt gaggccccac caagcatctg gtcgcggata gtcaactttg gttcaggctg 3061 gggcttctgg gtctccccca gtctgtttat aacatcaacc catgtcatac cccaaggtgc 3121 aaaggagttc ttcggagtcc ctatcaagca aatccagata cacaagtcag gtgaattctg 3181 ccgattgaga ttcccaaagc caatcagaac cgatgtgacg ggcatgattc tagaagaagg 3241 tgcgcccgag gggaccgtgg ccacactgct catcaagaga ccaactggag agctcatgcc 3301 tctggcagcc agaatgggga cccatgcaac catgaaaatt caggggcgca cagttggagg 3361 gcaaatgggt atgctcctga caggatccaa cgccaagagt atggacctag gcacaacacc 3421 aggcgactgc ggctgcccct acatctacaa gagggggaat gactacgtgg tcataggggt 3481 ccatacggct gctgcccgtg gaggaaacac tgtcatatgt gccacccagg gaagtgaggg 3541 agaggccaca cttgaaggag gtgacagtaa agggacatac tgtggcgcac caatcttggg 3601 cccagggagc gctccaaagc tcagcaccaa gaccaagttt tggagatcat ccacaacacc 3661 actcccacct ggcacctacg aaccagccta cctcggtggc agagacccta gagtcaaagg 3721 tggcccttca ttgcaacaag ttatgaggga ccagctgaag ccattcacag aacccagagg 3781 caaaccgcca agaccaaatg tgttggaagc tgccaagaaa accatcatca atgtccttga 3841 gcaaacaatt gatccacccc aaaaatggtc atttgcgcaa gcttgcgcat cccttgacaa 3901 aaccacctcc agcggccacc cgcaccacat gcggaaaaac gactgttgga atggggagtc 3961 cttcacagga aagttggctg accaagcctc caaggccaac ctaatgtttg aagagggaaa 4021 gaacatgact ccagtctaca caggtgcact taaagatgag ttggtaaaga ccgataaagt 4081 ttatggtaag gtcaagaaga ggcttctatg gggttcagat ctggcgacca tgatacggtg 4141 cgcccgagct tttggaggcc tcatggatga actcaaggca cactgtgtca cactccctgt 4201 cagagttggt atgaacatga atgaggatgg ccccatcatc ttcgagaagc actccagata 4261 tagatatcat tatgatgctg actattcccg gtgggactca acacaacaaa gggatgtgct 4321 agcagcagca ctagaaatca tggttaagtt ctctccagaa ccacacctgg cccagatagt 4381 tgcagaagac ctcctttccc ctagcgtgat ggatgtgggt gactttcaaa tatcgataag 4441 tgagggtctc ccctctgggg tgccttgcac ctctcagtgg aattccatcg cccactggct 4501 cctcactctg tgtgcacttt ctgaagtcac ggacctgtcc cctgatatca ttcaggccaa 4561 ctcccttttc tccttctatg gtgatgatga gattgtaagc acagacataa agttggaccc 4621 agagaggcta acagcaaaac tcaaggagta cgggctgaaa ccaacccgcc ccgacaaaac 4681 tgaaggaccc ctcgtcatct ctgaagacct ggatggtctg acattcctcc ggagaactgt 4741 gacccgtgat ccagctggct ggtttggaaa attggaacaa agttcaattc ttaggcaaat 4801 gtactggacc aggggtccca accatgaaga cccatttgaa acaatgatac cacactccca 4861 aagacccata caattgatgt ccttgctggg cgaggctgca ctccacggcc cggcattcta 4921 cagcaaaatc agcaaattag tcattgcaga gttgaaggaa ggtggcatgg atttttacgt 4981 acccagacaa gagccaatgt tcaggtggat gagattctca gatctgagca catgggaggg 5041 cgatcgcaat ctggctccca gttttgtgaa tgaagatggc gtcgagtgac gtcaacccat 5101 ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa tgaggttatg gctctggagc 5161 ccgttgttgg tgccgccatt gcggcacctg tagcgggcca acaaaatgta attgacccct 5221 ggattagaaa caattttgta caagcccctg gtggagagtt tacagtatcc cctagaaacg 5281 ctccaggtga aatactatgg agcgcgccct tgggccctga tctaaatccc tacttgtctc 5341 atttggccag aatgtacaat ggttatgcag gtggttttga agtgcaggta attctcgcgg 5401 ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt cccaccaaat ttcccaactg 5461 aaggcttgag ccccagtcag gtcactatgt tcccccatat agtagtagat gttaggcaac 5521 tagaacctgt gttgattccc ttacccgatg ttaggaataa tttctatcat tataatcaat 5581 caaatgatcc caccattaag ttgatagcaa tgttgtatac accacttagg gctaataatg 5641 ctggggatga tgtcttcaca gtctcttgcc gagttctcac gagaccatcc cccgattttg 5701 atttcatatt tctagtgcca cccacagttg agtcaagaac taaaccattc tctgtcccag 5761 ttttaactgt tgaggagatg accaattcaa gattccccat tcctttggaa aagttgttca 5821 cgggtcccag cagtgccttt gttgtccaac cacaaaacgg taggtgcacg actgatggcg 5881 tgctcctagg caccacccaa ctgtctcctg tcaacatctg cacctttaga ggagatgtca 5941 cccatatcac aggtagtcat aattacacaa tgaatttggc ttctcaaaat tggagtaact 6001 acgacccaac agaagaaatc ccagcccctc tagggactcc agactttgtg gggaagattc 6061 aaggcatgct tacccaaacc acaaggacag atggctcaac acgcggccac aaagccacag 6121 tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt gaaactgaca 6181 caaacaatga ttttgaagct aaccaaaaca caaagttcac cccagttggt gtcatccaag 6241 atggtggcac cacccatcga aatgaacccc aacagtgggt actcccaagt tactcaggca 6301 ggaacactcc taatgtgcat ctggcccccg ctgtggcccc cacttttccg ggtgagcaac 6361 tcctcttctt tagatccacc atgcccggat gcagcgggta ccccaacatg gatttggatt 6421 gtctgctccc ccaggaatgg gtgcagtact tctaccagga ggcagcccca gcacaatctg 6481 acgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt gaatgtaagc 6541 ttcataaatc aggctatgtt acagtggctc acactggcca acatgatttg gttatccccc 6601 ccaatggtta ttttaggttt gattcctggg ttaaccagtt ttacacgctt gcccccatgg 6661 gaaatggagc ggggcgtaga cgtgcactat aatggctgga gctttctttg ctggattggc 6721 atctgatgtc cttggctctg gacttggttc ccttatcaat gctggggctg gggccatcaa 6781 ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa gcatccttcc aatttagcag 6841 caatctacaa caggcttcct ttcaacatga caaagagatg ctccaagcac aaattgaggc 6901 taccaaaagg ttacaacagg aaatgatgaa agttaagcag gcaatgctcc tagagggtgg 6961 gttctctgag acagacgcag cccgcggggc aatcaacgcc cctatgacaa aagccttgga 7021 ctggagcggg acaaggtact gggctcctga tgctaggact acaacataca atgcaggccg 7081 cttttccacc ccccaaccat caggggcgct gccaggaaga gctaatttta gggatgctgt 7141 ccctgctcgg ggttcctcta gtaagtcttc taattcttct actgctactt ctgtgtattc 7201 aaatcaaact acttcaacga gacttggttc tacagctggt tctggtacca gtgtctcgag 7261 cttcccgtca actgcaagga ctaggagctg ggttgaggac caaagtagga atttgtcacc 7321 tttcatgagg ggggcccaca acatatcgtt tgtcacccca ccatctagca ggtcctctag 7381 ccaaggcaca gtctcaaccg tgcctaaaga gattttggac tcctggactg gcgctttcaa 7441 cacgcgcagg cagccactct tcgctcacat tcgtaagcga ggggagtcac gggtgtaatg 7501 tgaaaagaca aaattgatta tctttctttt cttt //