Typing tool
|
Complete norovirus genomes
LC699538 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5090 ORF2: 5071..6693 ORF3: 6693..7499LOCUS LC699538 7539 bp RNA linear VRL 12-MAR-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/759/Tokyo/2021/Japan genomic RNA, nearly complete genome. ACCESSION LC699538 VERSION LC699538.1 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Suzuki,J. and Sadamasu,K. TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney [P31] JOURNAL Unpublished REFERENCE 2 (bases 1 to 7539) AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E.,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..7539 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/759/Tokyo/2021/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2021-11" gene <1..5090 /gene="POL" CDS <1..5090 /gene="POL" /note="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="BDG75418.1" /translation="SNDAFAAAVANSNNDIAKSSSDGMFSNMAVTFKRALGARPKQPP PKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNT AFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKV ELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLNR RMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPL NILNVLATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE ANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSAS PDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKI AASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL NCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD FPGQPDMWKNAFSPDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL HERLDEYELQGPALATFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLK QALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARI RYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKPK DDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSE IRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFI TSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVAT LLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSA PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP PRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGES FTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMV RCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQ RDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWN SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGL KPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQGSILRQMYWTRGPNHED PFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5071..6693 /gene="VP1" CDS 5071..6693 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDG75419.1" /translation="MKMASSDVNPSDGSAASLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGGVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGML 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="BDG75420.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS NSSTATSVYSNQTISTRLGSTAGSGTSVSNFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSNQGTVSTVPKEILDSWTGAFNTRRQPLFAHVRKRGESRV" ORIGIN 1 cgtctaacga cgctttcgct gccgctgttg ctaacagcaa caacgacatc gcaaaatctt 61 caagtgacgg tatgttttct aacatggctg tcacttttaa gcgggccctc ggggcgcggc 121 ctaaacagcc gcccccgaag gaaataccac ccaggccccc gcgaccaccc acgccagaat 181 tggtcaaaaa gatccctcct cccccaccca acggagagga tgaactagtg gtctcttaca 241 acgccaaaga tggcgtttcc ggactgcctg agctcaccac tgtcagacaa ccggaagaaa 301 ccaacacggc gttcagtgtc cccccactca accaaaggga gagcagggac gccaaggagc 361 cactaactgg aacaatcatt gaaatgtggg atggagaaat ctaccattac ggcctgtacg 421 tggaacgagg tctcatactt ggtgtgcaca agccaccagc agccatcagc ctcgctaagg 481 tcgagctggc accactctct ttgttctgga ggcctgtata caccccccag taccttatct 541 ctccagacac tcttaggaga ttacatggag agtcattccc ctacactgct tttgacaaca 601 attgctacgc cttttgttgt tgggtattag acctaaacga ctcatggcta aacaggagaa 661 tgattcagag aacaacaggc ttcttcaggc cgtaccagga ttggaacagg aaacccctcc 721 ccactatgga tgactccaaa ttaaagaagg tagccaacat attcttgtgc actttgtctt 781 cactattcac caggcccatc aaggacataa tagggaagtt gaaacctctc aacatcctta 841 atgttctggc tacatgtgat tggaccttcg caggcatagt ggaatcctta atactcttgg 901 cagaactctt tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttgc 961 ttggtgatta tgaactgcaa ggacccgagg accttgcagt agaactggtc ccagtagtga 1021 tgggggggat aggtttggtg ctaggattta ccaaagagaa gatcggtaaa atgttgtcgt 1081 ccgctgcatc cactttaaga gcttgcaaag accttggtgc atacggactg gaaatcttaa 1141 aattggtcat gaagtggttc ttcccaaaga aagaggaagc aaatgaactg gccatggtga 1201 gatccatcga ggatgcagta ctagacctcg aggcaattga aaacaaccac atgaccaccc 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 aggaataggg aaaactcacc 1501 ttgccaggga gctggccaag aagatcgcgg cctccctcac aggggaccag cgtgtgggcc 1561 ttatcccacg caatggtgtc gaccactggg acgcatacaa gggcgaaagg gttgtcctat 1621 gggacgacta tggaatgagc aaccccatcc atgatgccct taggttgcag gagcttgctg 1681 acacttgccc cctcacgcta aattgtgaca gaattgagaa caaaggaaaa gtctttgata 1741 gtgatgccat aattatcacc accaacctgg ccaacccagc accactagat tatgtcaatt 1801 ttgaagcgtg ctcgagacgc attgatttcc tcgtgtacgc agaagctcct gaggtggaga 1861 aggcaaagcg cgacttccca ggtcaacctg acatgtggaa gaacgctttc agtcctgact 1921 tctcacacat aaaactgaca ttggctccac agggtggttt tgacaagaac ggcaacaccc 1981 cgcatggaaa aggggtcatg aagaccctca ccactggctc cctcatcgcc cgagcatcag 2041 ggttactcca tgagaggcta gatgaatatg aattgcaagg cccagccctc gccactttca 2101 actttgaccg caacaagata ctcgctttta gacagcttgc tgctgaaaac aagtatgggc 2161 tgatggacac aatgagagtt ggaaaacagc tcaaggatgt caagaccatg tcagacctca 2221 aacaagcact caagaacatc gcgatcaaga agtgccagat agtgtacaat ggtggcacct 2281 acacacttga ggctgatggc aagggcagtg tgaaagttga taaggtgcag agtgccactg 2341 tgcagaccaa caatgaacta gccggtgccc tacaccacct aagatgcgct agaatcagat 2401 actatgttaa gtgcgtccag gaggcactgt attccatcat ccaaatcgct ggggctgcat 2461 tcgtcacaac gcgcatcgct aagcgcatga atatacagaa tctctggtcc aagccacagg 2521 tggaagacac agaagagatg gccaacaaag atggttgcct aaaacccaaa gatgatgaag 2581 agtttgtcgt ttcatccgac gacatcaaga ctgagggcaa gaaggggaag aacaagtccg 2641 gccgtggcaa gaagcacaca gccttttcaa gtaaagggct cagtgatgag gagtacgatg 2701 agtacaagag aatcagagaa gaaaggaatg gtaagtactc catagaagag taccttcagg 2761 acagagacag gtactacgag gaggtggcca ttgccagggc aaccgaagag gacttctgtg 2821 aagaagaaga ggccaaaatc cggcagagga tttttagacc aacaaggaaa caacgcaaag 2881 aagagagggc ttctcttggc ttagtcacgg gttctgaaat caggaagaga aacccagaag 2941 acttcaaacc caagggaaag ctgtgggctg atgacgacag aagtgttgac tacaatgaaa 3001 aactcaactt tgaggcccca ccaagcatct ggtcgcggat agtcaacttt ggttcaggct 3061 ggggcttctg ggtctccccc agtctgttta taacatcaac ccatgtcata ccccaaggtg 3121 caaaggagtt cttcggagtc cctatcaagc aaatccagat acacaagtca ggtgaattct 3181 gccgattgag atttccaaag ccaatcagaa ccgatgtgac gggcatgatt ctagaagaag 3241 gtgcgcccga ggggaccgtg gccacactgc ttatcaagag accaactgga gagctcatgc 3301 ctctggcagc cagaatgggg acccatgcaa ccatgaaaat ccaggggcgc acagttggag 3361 ggcaaatggg tatgctcctg acaggatcta acgccaagag tatggaccta ggcacaacac 3421 caggcgactg tggctgcccc tacatctaca agagggggaa tgactacgtg gtcatagggg 3481 tccatacggc tgctgcccgt ggaggaaaca ctgtcatatg tgccacccag ggaagtgagg 3541 gagaggccac acttgaagga ggtgacagca aagggacata ctgtggcgcg ccaatcttgg 3601 gcccagggag cgctccgaag ctcagcacta agactaagtt ttggagatca tccacaacac 3661 cactcccacc tggcacctac gaaccagcct acctcggtgg caaagaccct agagtcaaag 3721 gtggcccttc attgcaacaa gttatgaggg accagctgaa gccattcaca gaacccagag 3781 gcaaaccacc aagaccaaat gtgttggaag ctgccaagaa aaccatcatc aatgtccttg 3841 agcaaacaat tgatccaccc cagaaatggt catttgcgca agcttgcgca tcccttgaca 3901 aaaccacctc cagcggccac ccgcaccaca tgcggaaaaa cgactgttgg aatggggagt 3961 ccttcacagg aaagttggct gaccaagcct ccaaggccaa cctaatgttt gaagagggaa 4021 agaacatgac tccagtctac acaggtgcac ttaaagatga gttggtaaag accgataaag 4081 tgtatggtaa ggtaaagaag aggcttctat ggggttcaga tctggcgacc atggtacggt 4141 gcgcccgagc ttttggaggt ctcatggatg aactcaaggc acactgtgtc acactccctg 4201 tcagagttgg tatgaacatg aatgaggatg gccccatcat cttcgagaag cactccagat 4261 atagatatca ttatgatgct gactattccc ggtgggactc aacacaacaa agggatgtgc 4321 tggcagcagc actagagatc atggttaagt tctctccaga accacacctg gcccagatag 4381 ttgcagaaga cctcctttcc cctagcgtga tggatgtggg tgactttcaa atatcaataa 4441 gtgagggtct cccatctggg gtaccttgca cctcccagtg gaattccatc gcccactggc 4501 tcctcactct gtgtgcactc tctgaagtca cggacctgtc ccctgatatc attcaggcta 4561 actccctttt ctccttctat ggtgatgatg agattgtaag cacagatata aagttggacc 4621 cagagaggct aacagcaaag ctcaaggagt acgggctgaa accaacccgc cccgacaaaa 4681 ctgaaggacc ccttgtcatc tctgaagacc tggatggtct gacattcctc cggagaactg 4741 tgacccgtga tccagctggc tggtttggaa aattggaaca aggttcaatt cttaggcaaa 4801 tgtactggac caggggcccc aaccatgaag acccatttga aacaatgata ccacactccc 4861 aaagacccat acaattgatg tccttgctgg gcgaggctgc actccacggc ccggcattct 4921 acagcaaaat tagcaaatta gtcattgcag agttgaagga aggtggcatg gatttttacg 4981 tgcccagaca agagccaatg ttcagatgga tgagattctc agatctgagc acgtgggagg 5041 gcgatcgcaa tctggctccc agttttgtga atgaagatgg cgtcgagtga cgtcaaccca 5101 tctgatgggt ccgcagccag cctcgtccca gaggtcaaca atgaggttat ggctctggag 5161 cccgttgttg gtgccgccat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc 5221 tggattagaa ataattttgt acaagcccct ggtggagagt ttacagtatc ccctagaaac 5281 gctccaggtg aaatactatg gagcgcgccc ttgggccctg atctaaaccc ctacttgtct 5341 cacttagcca gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aatcctcgcg 5401 gggaacgcgt tcaccgctgg gaaggtcata tttgcagcag tcccaccaaa tttcccaact 5461 gaaggcttga gccccagcca ggtcactatg ttcccccata tagtagtaga tgtcaggcaa 5521 ttagaacctg tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa 5581 tcaaatgacc ccaccattaa gttgatagca atgttgtata caccacttag ggctaataat 5641 gctggggacg atgtcttcac agtttcttgt cgagttctca cgagaccatc ccccgatttt 5701 gacttcatat ttttagtgcc acccacagtt gagtcaagaa ctaaaccatt ctctgtccca 5761 gttttgactg ttgaggagat gaccaattca agattcccca ttcctttgga aaagttgttc 5821 acgggtccca gtagtgcctt tgttgtccaa ccacaaaatg gtaggtgcac gactgatggc 5881 gtgctcctag gcaccaccca actgtctcct gtcaacatct gcaccttcag aggaggtgtc 5941 acacatatca caggtagtca taactataca atgaatttgg cttctcaaaa ttggagcaac 6001 tatgacccaa cagaagaaat cccagcccct ctagggactc cagactttgt ggggaagata 6061 caaggcatgc tcacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca 6121 gtgtatactg ggagcgccga ctttgctcca aaactgggta gagtccagtt tgaaactgac 6181 acaaacaatg attttgaggc taaccaaaac acaaagttca ccccagttgg tgtcatccaa 6241 gatggtggca ccactcatcg aaatgaaccc caacagtggg tgcttccaag ttactcaggc 6301 aggaacactc ctaatgtgca tctggccccc gcagtggccc ccacttttcc gggtgagcag 6361 ctccttttct ttagatccac catgcccgga tgcagcgggt accccaacat ggatttggat 6421 tgtctgctcc cccaggaatg ggtgcagtac ttctaccagg aggcagcccc agcacaatct 6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgtaag 6541 cttcataaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc 6601 cccaacggtt attttagatt tgattcctgg gtcaaccagt tctacacact tgcccccatg 6661 ggaaatggag cggggcgtag acgtgcacta taatggctgg agctttcttt gctggattgg 6721 catctgatgt tcttggctct ggacttggtt cccttatcaa tgctggggct ggggccatca 6781 accaaaaagt tgagtttgaa aataatagaa aattgcagca agcatccttc caatttagca 6841 gcaatctaca acaggcttcc tttcaacatg ataaagagat gctccaagca caaattgagg 6901 ctaccaaaag gttacaacag gaaatgatga gagttaagca ggcaatgctc ctagagggtg 6961 ggttctctga gacagatgca gcccgcgggg caatcaacgc ccctatgaca aaagccttgg 7021 actggagcgg gacaaggtac tgggctcctg acgctaggac tacaacatac aatgcaggcc 7081 gcttctccac cccccaacca tcgggggcgc tgccaggaag agccaatttt agggatgctg 7141 tccctgctcg gggttcctct agcaagtctt ccaattcttc tactgctact tctgtgtatt 7201 caaatcaaac aatttcaacg agacttggtt ctacagctgg ttctggtacc agtgtctcga 7261 acttcccgtc aactgcaagg actaggagct gggttgagga ccaaagtagg aatttgtcac 7321 ctttcatgag gggggcccac aacatatcgt ttgtcacccc accatctagc aggtcctcta 7381 accaaggcac agtctcaacc gtgcctaaag agattttgga ctcctggact ggcgctttca 7441 acacgcgcag gcagccactc ttcgctcatg ttcgtaagcg aggggagtca cgggtgtaat 7501 gtgaaaaggc aaaattgttt ttcttttctt tagtgtctt //