Typing tool
|
Complete norovirus genomes
LC699534 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5090 ORF2: 5071..6693 ORF3: 6693..7499LOCUS LC699534 7511 bp RNA linear VRL 12-MAR-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/136/Tokyo/2021/Japan genomic RNA, nearly complete genome. ACCESSION LC699534 VERSION LC699534.1 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Suzuki,J. and Sadamasu,K. TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney [P31] JOURNAL Unpublished REFERENCE 2 (bases 1 to 7511) AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E.,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..7511 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/136/Tokyo/2021/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2021-05" gene <1..5090 /gene="POL" CDS <1..5090 /gene="POL" /note="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="BDG75406.1" /translation="SNDASAAAVANSNNDIAKSSSDGVLSSMAVTFKRALGARPKQPP PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETNT AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLSR RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL NILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK QALKNIAIKKCQIVHNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCARI RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP PKPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDLATMI RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHED PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5071..6693 /gene="VP1" CDS 5071..6693 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDG75407.1" /translation="MKMASSDANPSDGPAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICAFRGDVTHTTGSHNYIMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6693..7499 /gene="VP2" CDS 6693..7499 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDG75408.1" /translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 agtctaacga cgcttccgct gccgctgttg ccaacagcaa caacgacatc gcaaaatctt 61 caagtgacgg tgtgttatct agcatggctg tcacttttaa gcgggccctc ggggcgcggc 121 ctaaacagcc gcccccgaag gaaataccac ccagaccccc gcgaccaccc acaccagaat 181 tggtcaaaaa gatccctcct cccccaccca acggggagga tgaactagtg gtctcttaca 241 gcgccaaaga tggcgtttcc ggactgcctg agcttaccac tgtcagacaa ccggaagaaa 301 ccaatacggc gttcagtgtc cccccactca accaaagaga gagcagagac gccaaggagc 361 cattaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac ggcctgtacg 421 tggagcgagg tcttatactt ggtgtgcaca agccaccagc agccatcagc ctcgccaagg 481 tcgagctggc accgctctct ttgttctgga gacctgtata caccccccag tacctcatct 541 ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgca tttgacaaca 601 attgctacgc cttttgttgt tgggtattag acctaaacga ctcgtggcta agcaggagaa 661 tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg aaacccctcc 721 ctactatgga tgattccaaa ttaaagaagg tagccaacat attcttgtgc actttgtctt 781 cactattcac cagacccatt aaggatataa tagggaagtt gaaacctctc aacatcctta 841 atattctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta atactcttgg 901 cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttgc 961 taggtgatta tgaactgcaa ggacccgagg accttgcagt ggaactggtc ccaatagtga 1021 tgggggggat aggtttggtg ctaggattta ccaaagagaa aatcggaaag atgctgtcat 1081 ccgctgcatc cactttaaga gcttgtaaag accttggtgc atacggactg gaaatcttaa 1141 aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg gctatggtga 1201 gatccatcga ggatgcagtg ctagacctcg aggcaattga aaacaaccac atgaccactc 1261 tgctcaaaga caaagacagc ttgacaacct acatgagaac ccttgacctt gaggaggaga 1321 aagccagaaa actctcaacc aaatctgctt cacccgatat tgtgggcaca atcaactctc 1381 ttctggcaag aatcgctgct gcacgctccc tagtgcatcg ggcgaaagaa gagctctcca 1441 gcaggccgag acctgtcgtt gtaatgatat cgggaagacc agggataggg aaaactcacc 1501 ttgccaggga gctggccaag aagatcgcgg cctcccttac aggggaccag cgtgtgggcc 1561 ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaaga gttgtcctat 1621 gggacgacta tggaatgagc aaccccatcc atgatgccct caggttgcag gagcttgctg 1681 acacttgtcc cctcacgcta aattgtgaca gaattgagaa caagggaaaa gtctttgaca 1741 gtgatgccat aattatcacc accaacctgg ccaacccagc accactggat tatgtcaact 1801 ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc agaagcccct gaggtggaga 1861 aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc agtcctgact 1921 tctcacacat aaaactgtca ttggctccac agggtggttt tgacaagaac ggcaacaccc 1981 cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc cgagcatcag 2041 ggttactcca tgagaggcta gatgaatatg aattgcaagg cccagccctc accactttca 2101 actttgaccg caacaaggta cttgctttta gacagcttgc tgctgaaaac aagtatgggc 2161 tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagactatg tcagacctca 2221 aacaagcact taagaacatc gcgatcaaga agtgccagat agtgcacaat ggtggcacct 2281 acacacttga ggctgatggc aagggcaatg tgaaagttga caaagtgcaa agtgccactg 2341 tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct agaatcagat 2401 actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct ggggctgcat 2461 tcgtcaccac gcgcatcgct aagcgcatga atatacagaa tctctggtcc aagccacagg 2521 tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa gatgatgaag 2581 agtttgtcgt ttcatccgac gacatcaaaa ctgagggcaa gaaagggaag aacaagtccg 2641 gccgtggcaa gaagcacaca gccttttcaa gtaaagggct cagtgatgag gagtacgatg 2701 agtacaaaag aatcagagaa gaaaggaacg gtaagtactc catagaagag taccttcagg 2761 acagagacag gtactacgag gaagtggcca ttgccagggc aaccgaagag gacttctgtg 2821 aagaagaaga ggccaaaatc cggcagagga ttttcagacc aacaaggaaa caacgcaaag 2881 aagagagggc ctctctcggc ttggtcacag gatctgaaat caggaagaga aacccagaag 2941 acttcaaacc caagggaaag ctgtgggctg atgatgacag aagtgttgac tacaatgaga 3001 aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct 3061 ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata ccccaaggtg 3121 caaaagaatt cttcggagtc cctatcaagc aaatccagat acacaagtca ggtgaattct 3181 gccgattgag attcccaaag ccaatcagaa ctgatgtgac gggcatgatt ctagaagaag 3241 gtgcgcccga ggggaccgtg gccacactgc tcatcaagag accaactgga gagctcatgc 3301 ctctggcagc cagaatgggg acccatgcaa ccatgaaaat tcaggggcgc acagttggag 3361 ggcaaatggg tatgctcctg acaggatcca acgccaagag tatggaccta ggcacaacac 3421 caggcgactg cggctgcccc tacatctaca agagggggaa tgactacgtg gtcatagggg 3481 tccatacggc cgctgcccgt ggaggaaaca ctgtcatatg tgccacccag ggaagtgagg 3541 gagaggccac acttgaagga ggtgacagta aagggacata ctgtggcgcg ccaatcttgg 3601 gcccagggag cgctccgaag ctcagcacca agactaagtt ttggagatca tccacaacac 3661 cactcccacc tggcacctac gaaccagcct acctcggtgg caaagaccct agagtcaaag 3721 gtggcccctc attgcaacaa gttatgaggg accagctgaa gccattcaca gaacccagag 3781 gcaaaccacc aaagccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg 3841 agcaaacaat tgatccaccc caaaaatggt catttgcgca agcttgcgca tcccttgaca 3901 aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt 3961 ctttcacagg aaaattggct gaccaagcct ccaaggccaa cctaatgttt gaagagggaa 4021 agaacatgac tccagtctac acgggtgcac ttaaagatga gttggtaaag accgataaag 4081 tttatggtag ggtcaagaag aggcttctgt ggggttcaga tctggcgacc atgatacggt 4141 gcgcccgagc tttcggaggc ctcatggatg aactcaaggc acactgtgtc acactccctg 4201 tcagagttgg tatgaacatg aatgaggatg gccccatcat cttcgagaag cactccagat 4261 atagatacca ctatgatgct gactattccc ggtgggactc aacacaacaa agggatgtgc 4321 tagcagcagc actagaaatc atggttaagt tctctccaga acctcacctg gcccagatag 4381 ttgcagaaga cctcctctcc cccagcgtga tggatgtggg tgactttcaa atatcaataa 4441 gtgagggtct cccctctggg gtgccttgta cctcccagtg gaattccatc gcccactggc 4501 tcctcactct atgtgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcca 4561 actccctttt ctccttctat ggtgatgatg agattgtaag cacagacata aagttggacc 4621 cagagaggct gacagcaaaa ctcaaggagt acgggctgaa accaacccgt cccgacaaaa 4681 ctgaaggacc ccttgttatc tctgaagacc tggatggtct gacattcctc cggagaactg 4741 tgacccgtga tccagccggc tggtttggaa aattggaaca aagttcaatt cttaggcaaa 4801 tgtactggac caggggtccc aaccatgaag acccatttga aacaatgata ccacattccc 4861 aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcattct 4921 acagcaaagt tagcaaatta gttattgcag agttgaagga aggaggcatg gatttttacg 4981 tacccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg 5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca 5101 tctgatgggc ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag 5161 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc 5221 tggattagaa acaattttgt acaagcccct ggtggagagt ttacagtgtc ccctagaaac 5281 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaatcc ctacttatct 5341 catttggcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg 5401 gggaacgcgt tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa ttttccaact 5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgttaggcaa 5521 ctagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa 5581 tcaaatgacc ccactattaa gttgatagca atgttgtata caccacttag ggctaataat 5641 gctggggatg atgtcttcac agtctcttgc cgagttctca cgaggccatc ccccgatttt 5701 gatttcatat ttctagtgcc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca 5761 gttttgactg ttgaggagat gaccaattca agattcccca tccctttgga aaagttgttc 5821 acgggtccca gcagtgcctt tgttgtccaa ccacaaaacg gtaggtgcac gactgatggc 5881 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcgccttcag aggagatgtc 5941 acccacacca caggtagtca taactacata atgaatttgg cttctcaaaa ttggagcaat 6001 tacgacccaa cagaagaaat tccagcccct ctagggactc cagactttgt ggggaagatt 6061 caaggcatgc ttacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca 6121 gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaactgac 6181 acaaacaatg attttgaagc taaccaaaac acaaagttca ccccagttgg tgtcatccaa 6241 gatggtggca ccacccaccg aaatgaaccc caacagtggg tgctcccaag ttactcaggc 6301 aggaacactc ctaatgtgca tctggccccc gctgtagccc ccacttttcc gggtgagcaa 6361 ctcctcttct tcagatccac catgcccgga tgcagcgggt accccaacat ggatttggat 6421 tgtctgctcc ctcaggaatg ggtgcagtac ttctaccaag aggcagcccc agcacaatct 6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgaatgcaag 6541 cttcataagt caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc 6601 cccaatggtt attttaggtt tgattcctgg gtcaaccagt tttacacgct tgcccccatg 6661 ggaaacggag cggggcgtag acgtgcacta taatggctgg aactttcttt gctggattgg 6721 catctgatgt ccttggctct ggacttggct cccttatcaa tgctggggct ggggccatca 6781 accaaaaagt tgagtttgaa aataatagaa aattgcaaca agcatccttc caatttagca 6841 gcaatctaca acaggcttcc tttcaacatg acaaagagat gctccaagca caaatcgagg 6901 ctaccaaaag gttacaacag gaaatgatga aagttaagca ggcaatgctc ttagagggtg 6961 ggttctctga gacagatgca gcccgcgggg caatcaacgc ccctatgaca aaagctttgg 7021 actggagcgg gacaaggtac tgggctcctg atgctaggac tacaacatac aatgcaggcc 7081 gcttctccac cccccaacca tcgggggcgc tgccaggaag agctaatctt agggatgctg 7141 tccctgctcg gggttcctct agtaagtctt ctaattcttc tgctgctact tctgtgtact 7201 caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga 7261 gcttcccgtc aactgcaagg actaggagct gggttgagga tcaaagtagg aatttgtcac 7321 ccttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc agatcctcta 7381 gccaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttta 7441 acacgcgcag gcagccactc ttcgctcaca ttcgtaagcg aggggagtca cgggtgtaat 7501 gtgaaaagac g //