Typing tool
|
Complete norovirus genomes
LC699529 | GII.4 Sydney | ||
---|---|---|---|
GII.P31 |
ORF1: 1..5076 ORF2: 5057..6679 ORF3: 6679..7485LOCUS LC699529 7497 bp RNA linear VRL 12-MAR-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/2448/Tokyo/2020/Japan genomic RNA, nearly complete genome. ACCESSION LC699529 VERSION LC699529.1 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Suzuki,J. and Sadamasu,K. TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney [P31] JOURNAL Unpublished REFERENCE 2 (bases 1 to 7497) AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E.,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..7497 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/2448/Tokyo/2020/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2020-02" gene <1..5076 /gene="POL" CDS <1..5076 /gene="POL" /note="ORF1" /codon_start=1 /product="nonstructural polyprotein" /protein_id="BDG75391.1" /translation="SAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPPKEI PPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNTAFSV PPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVELAP LSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLNILN ILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPI VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL AMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASPDIV GTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASL TGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ PDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL DEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQALK NIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCARIRYYV KCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPKDDEE FVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL QDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKR NPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH VIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIK RPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK RGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLS TKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPN VLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGK LADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIRCAR AFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRDVL AAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNSIAH WLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLKPTR PDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPFET MIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFRWMRF SDLSTWEGDRNLAPSFVNEDGVE" gene 5057..6679 /gene="VP1" CDS 5057..6679 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDG75392.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPVPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6679..7485 /gene="VP2" CDS 6679..7485 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDG75393.1" /translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARATTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tccgctgccg ctgttgccaa cagcaacaac gacatcgcaa aatcttcaag tgacggtgtg 61 ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa acagccgccc 121 ccgaaggaga taccacccag acccccgcga ccacccacac cagaattggt caaaaagatc 181 cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacagcgc caaagatggc 241 gtctccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa cacggcgttc 301 agtgtccccc cactcaacca aagagagagc agggacgcca aggagccatt aactggaaca 361 atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga acgaggtctt 421 atacttggtg tgcacaagcc accagcagcc atcagcctcg ccaaggtcga gctggcaccg 481 ctctctttgt tctggagacc tgtatacacc ccccagtacc tcatctctcc agacactctt 541 aggagattac atggagagtc attcccctac actgcatttg acaacaattg ctacgccttt 601 tgttgttggg tattagacct aaacgactca tggctaagca ggagaatgat tcagagaaca 661 acaggcttct tcaggccgta ccaggattgg aacaggaaac ccctccccac tatggatgat 721 tccaaattaa agaaggtagc caacatattc ttgtgcactt tgtcttcact attcaccaga 781 cccattaagg acataatagg gaagttgaaa cctctcaaca tccttaatat tctggctaca 841 tgtgattgga ccttcgcagg catagtggaa tccttaatac tcttggcaga actctttgga 901 gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgctagg tgattatgaa 961 ctgcaaggac ccgaggacct tgcagtggaa ctggtcccaa tagtgatggg ggggataggt 1021 ttggtgctag gatttaccaa agagaaaatc ggaaagatgc tgtcatccgc tgcatccact 1081 ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt ggtcatgaag 1141 tggttcttcc caaagaaaga ggaagcaaat gaactggcta 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 aagaccaggg atagggaaaa ctcaccttgc cagggagctg 1501 gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggccttat cccacgcaat 1561 ggtgtcgacc actgggacgc atacaagggc gaaagagttg tcctatggga cgactatgga 1621 atgagcaacc ccatccatga tgccctcagg ttgcaggagc ttgctgacac ttgtcccctc 1681 acgctaaatt gtgacagaat tgagaacaag ggaaaagtct ttgacagtga tgccataatt 1741 atcaccacca acctggccaa cccagcacca ctggattatg tcaactttga agcgtgctcg 1801 agacgcattg attttctcgt gtacgcagaa gcccctgagg tggagaaggc aaagcgcgac 1861 ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc acacataaaa 1921 ctgtcattgg ctccacaggg tggttttgac aagaacggca acaccccgca tggaaaaggg 1981 gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt actccatgag 2041 aggctagatg aatatgaatt gcaaggccca gccctcacca ctttcaactt tgaccgcaac 2101 aagatacttg cttttagaca gcttgctgct gaaaacaagt atgggctgat ggacacaatg 2161 agagttggaa aacagctcaa ggatgtcaag actatgtcag acctcaaaca agcacttaag 2221 aacatcgcga tcaagaagtg ccagatagtg tacaatggtg gcacctacac acttgaggct 2281 gatggcaagg gcaatgtgaa agttgacaaa gtgcaaagtg ccactgtgca gaccaacaat 2341 gaactagccg gtgccctaca ccacctaaga tgcgctagaa tcagatacta tgttaagtgc 2401 gtccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt caccacgcgc 2461 atcgctaagc gcatgaatat acagaatctc tggtccaagc cacaggtgga agacacagaa 2521 gagatggcca acaaagatgg ttgcctaaaa cccaaagatg atgaagagtt tgtcgtttca 2581 tccgacgaca tcaaaactga gggcaagaaa gggaagaaca agtccggccg tggcaagaag 2641 cacacagcct tctcaagtaa agggctcagt gatgaggagt acgatgagta caaaagaatc 2701 agagaagaaa ggaatggtaa gtactccata gaagagtacc ttcaggacag agacaggtac 2761 tacgaggaag tggccattgc cagggcaacc gaagaggact tctgtgaaga agaagaggcc 2821 aaaatccggc agaggatttt cagaccaaca aggaaacaac gcaaagaaga gagggcctct 2881 ctcggcttgg tcacaggatc tgaaatcagg aagagaaacc cagaagactt caaacccaag 2941 ggaaagctgt gggctgatga tgacagaagt gttgactaca atgagaaact caactttgag 3001 gccccaccaa gcatctggtc gcggatagtc aactttggtt caggctgggg cttctgggtc 3061 tcccccagtc tgtttataac atcaacccat gtcatacccc aaggtgcaaa agaattcttc 3121 ggagtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg attgagattc 3181 ccaaagccaa tcagaactga tgtgacgggc atgattctag aagaaggtgc gcccgagggg 3241 accgtggcca cactgctcat caagagacca actggagagc tcatgcctct ggcagccaga 3301 atggggaccc atgcaaccat gaaaattcag gggcgcacag ttggagggca aatgggtatg 3361 ctcctgacag gatccaacgc caagagtatg gacctaggca caacaccagg cgactgcggc 3421 tgcccctaca tctacaagag ggggaatgac tatgtggtca taggggtcca tacggccgct 3481 gcccgtggag gaaacactgt catatgtgcc acccagggaa gtgagggaga ggccacactt 3541 gaaggaggtg acagtaaagg gacatactgt ggcgcgccaa tcttgggccc agggagcgct 3601 ccgaagctca gcaccaagac taagttttgg agatcatcca caacaccact cccacctggc 3661 acctacgaac cagcctacct cggtggcaaa gaccctagag tcaaaggtgg tccttcattg 3721 caacaagtta tgagggacca gctgaagcca ttcacagaac ccagaggcaa accaccaaga 3781 ccaaatgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca aacaattgat 3841 ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac cacctccagc 3901 ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcttt cacaggaaaa 3961 ttggctgacc aagcctccaa ggccaaccta atgtttgaag agggaaagaa catgactcca 4021 gtctacacag gtgcacttaa agatgagttg gtaaagaccg ataaagttta tggtaaggtc 4081 aagaagaggc ttctgtgggg ttcagatctg gcgaccatga tacggtgcgc ccgagctttc 4141 ggaggcctca tggatgaact caaggcacac tgtgtcacac tccctgtcag agttggtatg 4201 aacatgaatg aggatggccc catcatcttc gagaagcact ccagatatag ataccactat 4261 gatgctgact attcccggtg ggactcaaca caacaaaggg atgtgctagc agcagcacta 4321 gaaatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc agaagacctc 4381 ctctccccca gcgtgatgga tgtgggtgac tttcaaatat caataagtga gggtctcccc 4441 tctggggtgc cttgtacctc ccagtggaat tccatcgccc actggctcct cactctatgt 4501 gcactctctg aagtcacgga cctgtcccct gatatcattc aggccaactc ccttttctcc 4561 ttctatggtg atgatgagat tgtaagcaca gacataaagt tggacccaga gaggctgaca 4621 gcaaaactca aggagtacgg gctgaaacca acccgccccg acaaaactga gggacccctt 4681 gttatctctg aagacctgga tggtctgaca ttcctccgga gaactgtgac ccgtgatcca 4741 gctggctggt ttggaaaatt ggaacaaagt tcaattctta ggcaaatgta ctggaccagg 4801 ggtcccaacc atgaagatcc atttgaaaca atgataccac attcccaaag acccatacaa 4861 ttgatgtcct tgctgggcga ggctgcactc cacggcccgg cattctacag caaagttagc 4921 aaattagtta ttgcagagtt gaaggaagga ggcatggatt tttacgtacc cagacaagag 4981 ccaatgttca gatggatgag attctcagat ctgagcacgt gggagggcga tcgcaatctg 5041 gctcccagtt ttgtgaatga agatggcgtc gagtgacgcc aacccatctg atgggtccgc 5101 agccaacctc gtcccagagg tcaacaatga ggttatggct ctggagcccg ttgttggtgc 5161 cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga ttagaaacaa 5221 ttttgtacaa gcccctggtg gagagttcac agtgtcccct agaaacgctc caggtgaaat 5281 actatggagc gcgcccttgg gccctgatct aaatccctac ttatctcact tggccagaat 5341 gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga acgcgtttac 5401 cgccgggaag gtcatatttg cagcagtccc accaaatttt ccaactgaag gcttgagccc 5461 cagccaggtc actatgttcc cccatatagt ggtagatgtt aggcaactag aacctgtgtt 5521 gattccctta cccgatgtta ggaataattt ctatcattac aatcaatcaa atgaccccac 5581 tattaagttg atagcaatgt tgtatacacc acttagggct aataatgctg gggatgatgt 5641 cttcacagtt tcttgccgag ttctcacgag gccatccccc gattttgact tcatatttct 5701 agtgccaccc acagttgagt caagaactaa accattctct gtcccagttt tgactgttga 5761 ggagatgacc aattcaagat tccccgttcc tttggaaaag ttgttcacgg gtcccagcag 5821 tgcctttgtt gtccaaccac aaaacggtag gtgcacgact gatggcgtgc tcctaggcac 5881 cacccaactg tctcctgtca acatctgcgc cttcagagga gatgtcaccc acatcacagg 5941 tagtcataac tacacaatga atttggcttc tcaaaattgg agcaattacg acccaacaga 6001 agaaattcca gcccctctag ggactccaga ctttgtgggg aagattcaag gcatgcttac 6061 ccaaaccacc aggacagatg gctcaacacg cggccacaaa gccacagtgt acactgggag 6121 cgccgacttt gctccaaaac tgggtagagt tcaatttgaa actgacacaa acaatgattt 6181 tgaagctaac caaaacacaa agttcacccc agttggtgtc atccaagatg gtggcaccac 6241 ccaccgaaat gaaccccaac agtgggtgct cccaagttac tcaggcagga acactcctaa 6301 tgtgcatctg gcccccgctg tagcccccac ttttccaggt gagcaactcc tcttcttcag 6361 atccaccatg cccggatgca gcgggtaccc caacatggat ttggattgtc tgctccccca 6421 ggaatgggtg cagtacttct accaagaggc agccccagca caatctgatg tggctctgct 6481 aagatttgtg aatccagaca caggtagggt tttgtttgaa tgtaagcttc ataaatcagg 6541 ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca atggttattt 6601 taggtttgat tcctgggtca accagtttta cacgcttgcc cccatgggaa atggagcggg 6661 gcgtagacgt gcactataat ggctggaact ttctttgctg gattggcatc tgatgtcctt 6721 ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca aaaagttgag 6781 tttgaaaata atagaaaatt gcaacaagca tccttccaat ttagcagcaa tctacaacag 6841 gcttcctttc aacatgacaa agagatgctc caagcacaaa ttgaggctac caaaaggtta 6901 caacaggaaa tgatgaaagt taagcaggca atgctcttag agggtgggtt ctctgagaca 6961 gatgcagccc gcggggcaat caacgcccct atgacaaaag ctttggactg gagcgggaca 7021 aggtactggg ctcctgatgc tagggctaca acatacaatg caggccgctt ttccaccccc 7081 caaccatcgg gggcgctgcc aggaagagct aaccttaggg atgctgtccc tgctcggggt 7141 tcctctagta agtcttctaa ttcttctact gctacttctg tgtactcaaa tcaaactatt 7201 tcaacgagac ttggttctac agctggttct ggtaccagtg tctcgagctt cccgtcaact 7261 gcaaggacta ggagctgggt tgaggatcaa agcaggaatt tgtcaccttt catgaggggg 7321 gcccacaaca tatcgtttgt caccccacca tctagcagat cctctagcca aggcacagtc 7381 tcaaccgtgc ctaaagagat tttggactcc tggactggcg cttttaacac gcgcaggcag 7441 ccactcttcg ctcacattcg taagcgaggg gagtcacggg tgtaatgtga aaagaca //