Typing tool
|
Complete norovirus genomes
LC699526 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5086 ORF2: 5067..6689 ORF3: 6689..7495LOCUS LC699526 7523 bp RNA linear VRL 12-MAR-2022 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1851/Tokyo/2019/Japan genomic RNA, nearly complete genome. ACCESSION LC699526 VERSION LC699526.1 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Suzuki,J. and Sadamasu,K. TITLE Amino acid mutations in the P2 domain in norovirus GII.4 Sydney [P31] JOURNAL Unpublished REFERENCE 2 (bases 1 to 7523) AUTHORS Yaoita,Y., Asakura,H., Nagano,M., Hayashi,Y., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T., Kitamura,Y., Kaku,E.,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..7523 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/1851/Tokyo/2019/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2019-12" gene <1..5086 /gene="POL" CDS <1..5086 /gene="POL" /note="ORF1" /codon_start=2 /product="nonstructural polyprotein" /protein_id="BDG75382.1" /translation="NDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQPPP KEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYNAKDGVSGLPELTTVRQPEETNTA FSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAKVE LAPLSLFWRPVYTPQYLISPDTLRRLHGELFPYTAFDNNCYAFCCWVLDLNDSWLSRR MIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKPLN ILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVEL VPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEA NELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSASP DIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIA ASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLN CDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDF PGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLH ERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDLKQ ALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCARIR YYVKCAQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDIEEMANKDGCLKPKD DEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE EYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEI RKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFIT STHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVAGMILEEGAPEGTVATL LIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPY IYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAP KLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPP RPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESF TGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATMIR CARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQR DVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQWNS IAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTAKLKEYGLK PTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDP FETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRW MRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5067..6689 /gene="VP1" CDS 5067..6689 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDG75383.1" /translation="MKMASSDVNPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQSWSNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6689..7495 /gene="VP2" CDS 6689..7495 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDG75384.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANFRDAVPARGSSSKSS NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSAARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 taacgacgct tccgctgccg ctgttgccaa cagcaacaac gacattgcaa aatcttcaag 61 tgacggtgtg ttttctaaca tggctgtcac ttttaagcgg gccctcgggg cgcggcctaa 121 acagccgccc ccgaaggaaa taccacccag acccccgcga ccacccacac cagaattggt 181 caaaaagatc cctcctcccc cacccaacgg ggaggatgaa ctagtggtct cttacaacgc 241 caaagatggc gtttccggac tgcctgagct caccactgtc agacaaccgg aagaaaccaa 301 cacggcgttc agtgtccccc cactcaacca aagggagagc agggacgcca aggagccact 361 aactgggaca atcattgaaa tgtgggatgg agaaatctac cattacggcc tgtacgtgga 421 acgaggtctt atacttggtg tgcacaagcc accagcagcc atcagcctcg ctaaggtcga 481 gctggcacca ctctctttgt tctggagacc tgtatacacc ccccagtacc ttatctctcc 541 agacactctt aggagattac atggagagtt attcccctac actgcatttg acaacaattg 601 ctacgccttt tgttgttggg tattagacct aaacgactca tggctaagca ggagaatgat 661 tcagagaaca acaggcttct ttaggccgta ccaggattgg aacaggaaac ccctccccac 721 tatggatgat tccaaattaa agaaggtagc caacatattt ttgtgcactt tgtcttcact 781 attcaccagg cccatcaagg acataatagg gaagttgaaa cctctcaaca tccttaatat 841 tctggctaca tgtgattgga ctttcgcagg catagtggaa tccttaatac tcttggcaga 901 actctttgga gttttctgga cacccccaga tgtgtctgcg atgatcgccc ccttgctagg 961 tgattatgaa ctgcaaggac ccgaggacct tgcagtggaa ctggtcccaa tagtgatggg 1021 ggggataggt ttggttctag gatttaccaa agagaagatc ggaaagatgc tgtcatcagc 1081 tgcatccact ttaagagctt gtaaagacct tggtgcatac ggactggaaa tcttaaaatt 1141 ggtcatgaag tggttcttcc caaagaaaga ggaagcaaat gaactggcta tggtgagatc 1201 catcgaggat gcagtactag acctcgaggc aattgaaaac aaccacatga ccaccctgct 1261 caaagacaaa gacagtttga caacctacat gagaaccctt gaccttgagg aggagaaagc 1321 cagaaaactc tcaaccaaat ctgcttcacc cgatattgtg ggcacaatca actctcttct 1381 ggcaagaatc gctgctgcac gctccttagt gcatcgggcg aaagaagagc tctccagcag 1441 gccgagacct gtcgttgtaa tgatatcggg aagaccaggg atagggaaaa ctcaccttgc 1501 cagggagctg gccaagaaga tcgcggcctc cctcacaggg gaccagcgtg tgggccttat 1561 cccacgcaat ggtgtcgacc actgggacgc atacaagggc gaaagggtcg tcctatggga 1621 cgactatgga atgagcaacc ccatccatga tgcccttagg ttgcaggagc ttgctgacac 1681 ttgccccctc acactaaatt gtgacagaat tgagaacaaa ggaaaagtct ttgacagtga 1741 cgccataatt atcaccacca acctggccaa cccagcacca ctggattatg tcaactttga 1801 agcgtgctcg agacgcattg atttcctcgt gtacgcagaa gcccctgagg tggagaaggc 1861 aaagcgcgac ttcccaggtc aacctgacat gtggaagaac gctttcagtc ctgacttctc 1921 acacataaaa ctgtcattgg ctccacaggg tggttttgac aagaacggca acaccccgca 1981 tggaaaaggg gtcatgaaga ccctcaccac tggctccctc atcgcccgag catcagggtt 2041 actccatgag aggctagatg aatatgaatt gcaaggccca gccctcacca ctttcaactt 2101 tgaccgtaac aagatacttg cttttagaca gctcgctgct gaaaacaagt atgggctgat 2161 ggacacaatg agagttggaa aacagctcaa ggatgtcaag actatgtcag acctcaaaca 2221 ggcactcaag aacatcgcga tcaagaagtg ccagatagtg tacaatggtg gcacctacac 2281 acttgaggct gatggcaagg gcagtgtgaa agttgacaaa gtgcaaagtg ccactgtgca 2341 gaccaacaat gaactagccg gtgccctaca ccacctaaga tgcgctagaa tcagatacta 2401 tgttaagtgc gcccaggagg cactgtattc catcatccaa atcgctgggg ctgcattcgt 2461 caccacgcgc atcgctaagc gcatgaatat acagaatctc tggtccaagc cacaggtgga 2521 agacatagaa gagatggcca acaaagatgg ttgcctaaaa cccaaagatg atgaagagtt 2581 tgtcgtttca tccgacgaca tcaaaactga gggcaagaaa gggaagaaca agtccggccg 2641 tggcaagaag cacacagcct tttcaagtaa agggctcagt gatgaggagt atgatgagta 2701 caagagaatc agagaagaaa ggaatggtaa gtactccata gaagagtacc ttcaggacag 2761 agacaggtac tacgaggagg tggccattgc tagggcaacc gaagaggact tctgtgagga 2821 ggaggaggcc aaaatccggc agaggatttt cagaccaaca aggaaacaac gcaaagaaga 2881 gagggcttct ctcggcttgg tcacaggctc tgaaatcagg aagagaaacc cagaagactt 2941 caaacccaag ggaaagctgt gggctgatga cgacagaagt gttgactaca atgagaaact 3001 caactttgag gccccaccaa gcatctggtc gcggatagtc aactttggtt caggctgggg 3061 cttctgggtc tcccccagtc tgtttataac atcaacccat gtcatacccc aaggtgcaaa 3121 ggagttcttc ggagtcccta tcaagcaaat ccagatacac aagtcaggtg aattctgccg 3181 attgagattc ccaaagccaa tcagaaccga tgtggcgggc atgattctag aagaaggtgc 3241 gcccgagggg accgtggcca cactgctcat caagagacca actggagagc tcatgcctct 3301 ggcagccaga atggggaccc atgcaaccat gaaaattcag gggcgcacag ttggagggca 3361 gatgggtatg ctcctgacag gatccaacgc caagagtatg gacctaggca caacaccagg 3421 cgactgcggc tgcccctaca tctacaagag ggggaatgac tacgtggtca taggggtcca 3481 tacggctgct gcccgtggag gaaacactgt catatgtgcc acccagggaa gtgagggaga 3541 ggccacactt gaaggaggtg acagtaaagg gacatactgt ggcgcaccaa tcttgggccc 3601 agggagcgct ccgaagctca gcaccaagac caagttttgg agatcatcta caacaccact 3661 cccacctggc acctacgaac cagcctacct cggtggcaaa gaccctagag tcaaaggtgg 3721 cccttcattg caacaagtta tgagggacca gctgaagcca ttcacagaac ccagaggcaa 3781 accaccaaga ccaaacgtgt tggaagctgc caagaaaacc atcatcaatg tccttgagca 3841 aacaattgat ccaccccaaa aatggtcatt tgcgcaagct tgcgcatccc ttgacaaaac 3901 cacctccagc ggccacccgc accacatgcg gaaaaacgac tgttggaatg gggagtcctt 3961 cacaggaaag ttggctgacc aagcctccaa ggccaaccta atgtttgaag agggaaagaa 4021 catgactcca gtctacacag gtgcacttaa agatgagttg gtaaagaccg ataaagttta 4081 tggtaaggtc aagaagaggc ttctatgggg ttcagatctg gcgaccatga tacggtgcgc 4141 ccgagctttt ggaggcctca tggatgaact caaggcacac tgtgttacac tccctgtcag 4201 agttggtatg aacatgaatg aggatggccc catcatcttc gagaagcact ccagatatag 4261 atatcattat gatgctgact actcccggtg ggactcaaca caacaaaggg atgtgctagc 4321 agcagcacta gaaatcatgg ttaagttctc tccagaacca cacctggccc agatagttgc 4381 agaagacctc ctttccccta gcgtgatgga tgtgggtgac tttcaaatat caataagtga 4441 gggtctcccc tctggggtgc cttgcacctc ccagtggaat tccatcgccc actggctcct 4501 cactctgtgt gcactctctg aagtcacgga cctgtcccct gatatcattc aggccaactc 4561 ccttttctcc ttctatggtg atgatgagat tgtaagcaca gacataaagt tggacccaga 4621 gaggctaaca gcaaaactca aggagtacgg gctgaaacca acccgccccg acaaaactga 4681 aggacccctc gtcatctctg aagacctgga tggtctgaca ttcctccgga gaactgtgac 4741 ccgtgatcca gctggctggt ttggaaaatt ggaacaaagt tcaattctta ggcaaatgta 4801 ctggaccagg ggtcccaacc atgaagaccc atttgaaaca atgataccac actcccaaag 4861 acccatacaa ttgatgtcct tgttgggcga ggctgcactc cacggcccgg cattctacag 4921 caaaatcagc aaattagtca ttgcagagtt gaaggaaggt ggcatggatt tttacgtacc 4981 cagacaagag ccaatgttca ggtggatgag attctcagat ctgagcacgt gggagggcga 5041 tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc gagtgacgtc aacccatctg 5101 atgggtccgc agccaacctc gtcccagagg tcaacaatga ggttatggct ctggagcccg 5161 ttgttggtgc cgccattgcg gcacctgtag cgggccaaca aaatgtaatt gacccctgga 5221 ttagaaacaa ttttgtacaa gcccctggtg gagagtttac agtatcccct agaaacgctc 5281 caggtgaaat actatggagc gcgcccttgg gccctgatct aaatccctac ttgtctcatt 5341 tggccagaat gtacaatggt tatgcaggtg gttttgaagt gcaggtaatt ctcgcgggga 5401 acgcgttcac cgccgggaag gtcatatttg cagcagtccc accaaatttc ccaactgaag 5461 gcttgagccc cagccaggtt actatgttcc cccatatagt agtagatgtt aggcaactag 5521 aacctgtgtt gattccctta cccgatgtta ggaataattt ctatcattat aatcaatcaa 5581 atgatcccac cattaagttg atagcaatgt tgtacacacc acttagggct aataatgctg 5641 gggatgatgt cttcacagtc tcttgccgag ttctcacgag accatccccc gattttgact 5701 tcatatttct agtgccaccc acagttgagt caagaactaa accattctct gtcccagtct 5761 taactgttga ggagatgacc aactcaagat tccccattcc tttggaaaag ttgttcacgg 5821 gtcccagcag tgcctttgtt gtccaaccac aaaacggtag gtgcacgact gatggcgtgc 5881 tcctaggcac cacccaactg tctcctgtca acatctgcac ctttagagga gatgtcaccc 5941 atatcacagg tagtcataac tatacaatga atttggcttc tcaaagttgg agtaactacg 6001 acccaacaga agaaatccca gcccctctag ggactccaga ctttgtgggg aagattcaag 6061 gcatgctcac ccaaaccaca aggacagatg gctcaacacg cggccacaaa gccacagtgt 6121 atactgggag cgccgacttt gctccaaaac tgggtagagt tcagtttgaa actgacacaa 6181 acaatgattt tgaagctaac caaaacacaa agttcacccc agttggtgtc atccaagatg 6241 gtggcaccac ccatcgaaat gaaccccaac agtgggtact cccaagttac tcaggcagga 6301 acactcctaa tgtgcatctg gcccccgctg tggcccccac ttttccgggt gagcaactcc 6361 ttttctttag atccaccatg cccggatgca gcgggtaccc caacatggat ttggattgtc 6421 tgctccccca ggaatgggtg cagtacttct accaggaggc agccccagca caatctgatg 6481 tggctctgct aagatttgtg aatccagaca caggtagggt tttgtttgaa tgtaagcttc 6541 ataaatcagg ctatgttaca gtggctcaca ctggccaaca tgatttggtt atccccccca 6601 atggttattt taggtttgat tcctgggtca accagtttta cacgcttgcc cccatgggaa 6661 atggagcggg gcgtagacgt gcactataat ggctggagct ttctttgctg gattggcatc 6721 tgatgtcctt ggctctggac ttggttccct tatcaatgct ggggctgggg ccatcaacca 6781 aaaagttgag tttgaaaata acagaaaatt gcaacaagca tccttccaat ttagcagcaa 6841 tctacaacag gcttcctttc aacatgacaa agagatgctc caagcacaaa ttgaggctac 6901 caaaaggtta caacaggaaa tgatgaaagt taagcaggca atgctcctag agggtgggtt 6961 ctctgagaca gatgcagccc gcggggcaat caacgcccct atgacaaaag ccttggactg 7021 gagcgggaca aggtactggg ctcctgatgc taggactaca acatacaatg caggccgctt 7081 ttccaccccc caaccatcag gggcgctgcc aggaagagct aattttaggg atgctgtccc 7141 tgctcggggt tcctctagta agtcttctaa ttcttctact gctacttctg tgtattcaaa 7201 tcaaactact tcaacgagac ttggttctac agctggttct ggtaccagtg tctcgagctt 7261 cccgtcagct gcaaggacta ggagctgggt tgaggaccaa agtaggaatt tgtcaccttt 7321 catgaggggg gcccacaaca tatcgtttgt caccccacca tctagcaggt cctctagcca 7381 aggcacagtc tcaaccgtgc ctaaagagat tttggactcc tggactggcg ctttcaacac 7441 gcgcaggcag ccactcttcg ctcacattcg taagcgaggg gagtcacggg tgtaatgtga 7501 aaagacaaaa ttgattatct ttc //