Typing tool
|
Complete norovirus genomes
LC644993 | GII.4 Sydney | ||
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GII.P31 |
ORF1: 1..5093 ORF2: 5074..6696 ORF3: 6696..7501LOCUS LC644993 7501 bp RNA linear VRL 04-AUG-2021 DEFINITION Norovirus GII.4 Hu/GII.4[P31]/1503F/Tokyo/2021/Japan genomic RNA, nearly complete genome. ACCESSION LC644993 VERSION LC644993.1 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., Chiba,T., Suzuki,J. and Sadamasu,K. TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo(April 2020-March 2021) JOURNAL Unpublished REFERENCE 2 (bases 1 to 7501) AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y., Negishi,A., Kumagai,R., Kawakami,M., Hayashi,M., Yamazaki,T.,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., Chiba,T., Suzuki,J. and Sadamasu,K. TITLE Direct Submission JOURNAL Submitted (26-JUL-2021) 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..7501 /organism="Norovirus GII.4" /mol_type="genomic RNA" /strain="Hu/GII.4[P31]/1503F/Tokyo/2021/Japan" /host="Homo sapiens" /db_xref="taxon:489821" /country="Japan:Tokyo" /collection_date="2021-03" gene <1..5093 /gene="POL" CDS <1..5093 /gene="POL" /note="ORF1" /codon_start=3 /product="nonstructural polyprotein" /protein_id="BDA20603.1" /translation="ASNDASAAAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP PPKEIPPRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVFGLPELTTVRQPEETN TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK VELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV ELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLSTKSA SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL LHERLDEYELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMRVGKQLKDVKTMSDL KQALKNIAIKKCQIVYNGGTYTLEADGKGNVKVDKVQSATVQTNNELAGALHHLRCAR IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQNLWSKPQVEDTEEMANKDGCLKP KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS IEEYLQDRDRYYEEVAIARATEEDFCEEEAAKIRQRIFRPTRKQRKEERASLGLVTGS EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGK PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGRVKKRLLWGSDLATM IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQISISEGLPSGVPCTSQW NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPERLTVKLKEYG LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKVSKLVIAELKEGGMDFYVPRQEPMF RWMRFSDLSTWEGDRNLAPSFVNEDGVE" gene 5074..6696 /gene="VP1" CDS 5074..6696 /gene="VP1" /note="ORF2" /codon_start=1 /product="capsid protein VP1" /protein_id="BDA20604.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICAFRGDVTHITGSHNYTMNLASQNWSNYDPTEETPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRAQFETDTNNDFEANQNTKFTPVGVIQDG GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL" gene 6696..>7501 /gene="VP2" CDS 6696..>7501 /gene="VP2" /note="ORF3" /codon_start=1 /product="capsid protein VP2" /protein_id="BDA20605.1" /translation="MAGTFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS NSSAATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 tggcgtctaa cgacgcttcc gctgccgctg ttgccaacag caacaacgac atcgcaaaat 61 cttcaagtga cggtgtgttt tctaacatgg ctgtcacttt taagcgggcc ctcggggcgc 121 ggcctaaaca gccgcccccg aaggaaatac cacccagacc cccgcgacca cccacaccag 181 aattggtcaa aaagatccct cctcccccac ccaacgggga ggatgaacta gtggtctctt 241 acagcgccaa agatggcgtt ttcggactgc ctgagctcac caccgtcaga caaccggaag 301 aaaccaacac ggcgttcagt gtccccccac tcaaccaaag agagagcaga gacgccaagg 361 agccattaac tggaacaatc attgaaatgt gggatggaga aatctaccat tacggcctgt 421 acgtggagcg aggtcttata cttggtgtgc acaagccacc agcagccatc agcctcgcca 481 aggtcgagct ggcaccgctc tctttgttct ggagacctgt atacaccccc cagtacctca 541 tctctccaga cactcttagg agattacatg gagagtcatt cccctacact gcatttgaca 601 acaattgcta cgccttttgt tgttgggtat tagacctaaa cgactcgtgg ctaagcagga 661 gaatgattca gagaacaaca ggctttttca ggccgtacca ggattggaac aggaaacccc 721 tccctactat ggatgattcc aaattaaaga aggtagccaa catattcttg tgcactttgt 781 cttcactatt caccagaccc attaaggata taatagggaa gttgaaacct ctcaacatcc 841 ttaatattct ggctacatgt gattggacct tcgcaggcat agtggaatcc ttaatactct 901 tggcagaact ctttggagtt ttctggacac ccccagatgt gtctgcgatg atcgccccct 961 tgctaggtga ttatgaactg caaggacccg aggaccttgc agtggaactg gtcccaatag 1021 tgatgggggg gataggtttg gtgctaggat ttaccaaaga gaaaatcgga aagatgctgt 1081 catccgctgc atccacttta agagcttgta aagaccttgg tgcatacgga ctggaaatct 1141 taaaattggt catgaagtgg ttcttcccaa agaaagagga agcaaatgaa ctggctatgg 1201 tgagatccat cgaggatgca gtgctagacc tcgaggcaat tgaaaacaac cacatgacca 1261 ctctgctcaa agacaaagac agcttgacaa cctacatgag aacccttgac cttgaggagg 1321 agaaagccag aaaactctca accaaatctg cttcacccga tattgtgggc acaatcaact 1381 ctcttctggc aagaatcgct gctgcacgct ccctagtgca tcgggcgaaa gaagagctct 1441 ccagcaggcc gagacctgtc gttgtaatga tatcgggaag accagggata gggaaaactc 1501 accttgccag ggagctggcc aagaagatcg cggcctccct cacaggggac cagcgtgtgg 1561 gccttatccc acgcaatggt gtcgaccact gggacgcata caagggcgaa agagttgtcc 1621 tatgggacga ctatggaatg agcaacccca tccatgatgc cctcaggttg caggagcttg 1681 ctgacacttg tcccctcacg ctaaattgtg acagaattga gaacaaggga aaagtctttg 1741 acagtgatgc cataattatc accaccaacc tggccaaccc agcaccactg gattatgtca 1801 actttgaagc gtgctcgaga cgcattgatt tcctcgtgta cgcagaagcc cctgaggtgg 1861 agaaggcaaa gcgcgacttc ccaggtcaac ctgacatgtg gaagaacgct ttcagtcctg 1921 acttctcaca cataaaactg tcattggctc cacagggtgg ttttgacaag aacggcaaca 1981 ccccgcatgg aaagggggtc atgaagaccc tcaccactgg ctccctcatc gcccgagcat 2041 cagggttact ccatgagagg ctagatgaat atgaattgca aggcccagcc ctcaccactt 2101 tcaactttga ccgcaacaag gtacttgctt ttagacagct tgctgctgaa aacaagtatg 2161 ggctgatgga cacaatgaga gttggaaaac agctcaagga tgtcaagact atgtcagacc 2221 tcaaacaagc acttaagaac atcgcgatca agaagtgcca gatagtgtac aatggtggca 2281 cctacacact tgaggctgat ggcaagggca atgtgaaagt tgacaaagtg caaagtgcca 2341 ctgtgcagac caacaatgaa ctagccggtg ccctacacca cctaagatgc gctagaatca 2401 gatactatgt taagtgcgtc caggaggcac tgtattccat catccaaatc gctggggctg 2461 cattcgtcac cacgcgcatc gctaagcgca tgaatataca gaatctctgg tccaagccac 2521 aggtggaaga cacagaagag atggccaaca aagatggttg cctaaaaccc aaagatgatg 2581 aagagtttgt cgtttcatcc gacgacatca aaactgaggg caagaaaggg aagaacaagt 2641 ccggccgtgg caagaagcac acagcctttt caagtaaagg gctcagtgat gaggagtacg 2701 atgagtacaa aagaatcaga gaagaaagga atggtaagta ctccatagaa gagtaccttc 2761 aggacagaga caggtactac gaggaagtgg ccattgccag ggcaaccgaa gaggacttct 2821 gtgaagaaga agcggccaaa atccggcaga ggattttcag accaacaagg aaacaacgca 2881 aagaagagag ggcctctctc ggcttggtca caggatctga aatcaggaag agaaacccag 2941 aagacttcaa acccaaggga aagctgtggg ctgatgatga cagaagtgtt gactacaatg 3001 agaaactcaa ctttgaggcc ccaccaagca tctggtcgcg gatagtcaac tttggttcag 3061 gctggggctt ctgggtctcc cccagtctgt tcataacatc aacccatgtc ataccccaag 3121 gtgcaaaaga attcttcgga gtccctatca agcaaatcca gatacacaag tcaggtgaat 3181 tctgccgatt gagattccca aagccaatca gaactgatgt gacgggcatg attctagaag 3241 aaggtgcgcc cgaggggacc gtggccacac tgctcatcaa gagaccaact ggagagctca 3301 tgcctctggc agccagaatg gggacccacg caaccatgaa aattcagggg cgcacagttg 3361 gagggcaaat gggtatgctc ctgacaggat ccaacgccaa gagtatggac ctaggcacaa 3421 caccaggcga ctgcggctgc ccctacatct acaagagggg gaatgactac gtggtcatag 3481 gggtccatac ggccgctgcc cgtgggggaa acactgtcat atgtgccacc cagggaagtg 3541 agggagaggc cacacttgaa ggaggtgaca gtaaagggac atactgtggc gcgccaatct 3601 tgggcccagg gagcgctccg aagctcagca ccaagactaa gttttggaga tcatccacaa 3661 caccactccc acctggcacc tacgaaccag cctacctcgg tggcaaagac cctagagtca 3721 aaggtggccc ttcattgcaa caagttatga gggaccagct gaagccattc acagaaccca 3781 gaggcaaacc accaaggcca aatgtgttgg aagctgccaa gaaaaccatc atcaatgtcc 3841 ttgagcaaac aattgatcca ccccaaaaat ggtcatttgc gcaagcttgc gcatcccttg 3901 acaaaaccac ctccagcggc cacccgcacc acatgcggaa aaacgactgt tggaatgggg 3961 agtctttcac aggaaaattg gctgaccaag cctccaaggc caacctaatg tttgaagagg 4021 gaaagaacat gactccagtc tacacaggtg cacttaaaga tgagttggta aagaccgata 4081 aagtctatgg tagggtcaag aagaggcttc tgtggggttc agatctggcg accatgatac 4141 ggtgcgcccg agctttcgga ggcctcatgg atgaactcaa ggcacactgt gtcacactcc 4201 ctgtcagagt tggtatgaac atgaatgagg atggccccat catcttcgag aagcactcca 4261 gatatagata ccactatgat gctgactatt cccggtggga ctcaacacaa caaagggatg 4321 tgctagcagc agcactagaa atcatggtta agttctctcc agaaccacac ctggcccaga 4381 tagttgcaga agacctcctc tcccccagcg tgatggatgt gggtgacttt caaatatcaa 4441 taagtgaggg tctcccctct ggggtgcctt gtacctccca gtggaattcc atcgcccact 4501 ggctcctcac tctatgtgca ctctctgaag tcacggacct gtcccctgat atcattcagg 4561 ccaactccct tttctccttc tatggtgatg atgagattgt aagcacagac ataaagttgg 4621 acccagagag gctgacagta aaactcaagg agtacgggct gaaaccaacc cgccccgaca 4681 aaactgaagg accccttgtt atctctgaag acctggatgg tctgacattc ctccggagaa 4741 ctgtgacccg tgatccagcc ggctggtttg gaaaattgga acaaagttca attcttaggc 4801 aaatgtactg gaccaggggt cccaaccatg aagacccatt tgaaacaatg ataccacatt 4861 cccaaagacc catacaattg atgtctttgc tgggcgaggc tgcactccac ggtccggcat 4921 tctacagcaa agttagcaaa ttagttattg cagagttgaa ggaaggaggc atggattttt 4981 acgtacccag acaagagcca atgttcagat ggatgagatt ctcagatctg agcacgtggg 5041 agggcgatcg caatctggct cccagttttg tgaatgaaga tggcgtcgag tgacgccaac 5101 ccatctgatg ggtccgcagc caacctcgtc ccagaggtca acaatgaggt tatggctctg 5161 gagcccgttg ttggtgccgc cattgcggca cctgtagcgg gccaacaaaa tgtaattgac 5221 ccctggatta gaaacaattt tgtacaagcc cctggtggag agtttacagt gtcccctaga 5281 aacgctccag gtgaaatact atggagcgcg cccttgggcc ctgatctaaa tccctactta 5341 tctcatttgg ccagaatgta caatggttat gcaggtggtt ttgaagtgca ggtaattctc 5401 gcggggaacg cgttcaccgc cgggaaggtc atatttgcag cagtcccacc aaattttcca 5461 actgaaggct tgagccccag ccaggtcact atgttccccc atatagtagt agatgttagg 5521 caactagaac ctgtgttgat tcccttaccc gatgttagga ataatttcta tcattacaat 5581 caatcaaatg accccactat taagttgata gcaatgttgt atacaccact tagggctaat 5641 aatgctgggg atgatgtctt cacagtctct tgccgagttc tcacgaggcc atcccccgat 5701 tttgacttca tatttctagt gccacccaca gttgagtcaa gaactaaacc attctctgtc 5761 ccagttttga ctgttgagga gatgaccaat tcaagattcc ccatcccttt ggaaaagttg 5821 ttcacgggtc ccagcagtgc ctttgttgtc caaccacaaa acggtaggtg cacgactgat 5881 ggcgtactcc taggcaccac ccaactgtct cctgtcaaca tctgcgcctt cagaggagat 5941 gtcacccaca tcacaggtag tcataactac acaatgaatt tggcttctca aaattggagc 6001 aattacgacc caacagaaga aactccagcc cctctaggga ctccagactt tgtggggaag 6061 attcaaggca tgcttaccca aaccacaagg acagatggct caacacgcgg ccacaaagcc 6121 acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagctca atttgaaact 6181 gacacaaaca atgattttga agctaaccaa aacacaaagt tcaccccagt tggtgtcatc 6241 caagatggtg gcaccaccca ccgaaatgaa ccccaacagt gggtgctccc aagttactca 6301 ggcaggaaca ctcctaatgt gcatctggcc cccgctgtag cccccacttt tccgggtgag 6361 caactcctct tcttcagatc caccatgccc ggatgcagcg ggtaccccaa catggatttg 6421 gattgtctgc tccctcagga atgggtgcag tacttctacc aagaggcagc cccagcacaa 6481 tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgaatgt 6541 aagcttcata aatcaggcta tgttacagtg gctcacactg gccaacatga tttggttatc 6601 ccccccaatg gttattttag gtttgattcc tgggtcaacc agttttacac gcttgccccc 6661 atgggaaacg gagcggggcg tagacgtgca ctataatggc tggaactttc tttgctggat 6721 tggcatctga tgtccttggc tctggacttg gctcccttat caatgctggg gctggggcca 6781 tcaaccaaaa agttgagttt gaaaataata gaaaattgca acaagcatcc ttccaattta 6841 gcagcaatct acaacaggct tcctttcaac atgacaaaga gatgctccaa gcacaaattg 6901 aggctaccaa aaggttacaa caggaaatga tgaaagttaa gcaggcaatg ctcttagagg 6961 gtgggttctc tgagacagat gcagcccgcg gggcaatcaa cgcccctatg acaaaagctt 7021 tggactggag cgggacaagg tactgggctc ctgatgctag gactacaaca tacaatgcag 7081 gccgcttctc caccccccaa ccatcggggg cgctgccagg aagagctaat cttagggatg 7141 ctgtccctgc tcggggttcc tctagtaagt cttctaattc ttctgctgct acttctgtgt 7201 actcaaatca aactatttca acgagacttg gttctacagc tggttctggt accagtgtct 7261 cgagcttccc gtcaactgca aggactagga gctgggttga ggatcaaagt aggaatttgt 7321 cacctttcat gaggggggcc cacaacatat cgtttgtcac cccaccatct agcagatcct 7381 ctagccaagg cacagtctca accgtgccta aagagatttt ggactcctgg actggcgctt 7441 ttaacacgcg caggcagcca ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt 7501 a //