Typing tool
|
Complete norovirus genomes
LC790058 | GII.4 Sydney | ||
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GII.P16 |
ORF1: 1..5090 ORF2: 5071..6693 ORF3: 6693..7499LOCUS LC790058 7540 bp RNA linear VRL 13-DEC-2023 DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2022/GII.4Sydney[P16]/ TKY221104 RNA, nearly complete genome. ACCESSION LC790058 VERSION LC790058.1 KEYWORDS . SOURCE Norovirus GII.4 Sydney 2012 ORGANISM Norovirus GII.4 Sydney 2012 Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes; Picornavirales; Caliciviridae; Norovirus; Norwalk virus. REFERENCE 1 AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y., Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K. TITLE The Detection of Norovirus in Tokyo JOURNAL Unpublished REFERENCE 2 (bases 1 to 7540) AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y., Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K. TITLE Direct Submission JOURNAL Submitted (09-DEC-2023) Contact:Hiroyuki Asakura Tokyo Metropolitan Institute of Public Health, Department of Microbiology; Hyakunincho 3-24-1, Shinjyuku-ku, Tokyo 169-0073, Japan URL :https://www.tmiph.metro.tokyo.lg.jp/ FEATURES Location/Qualifiers source 1..7540 /organism="Norovirus GII.4 Sydney 2012" /mol_type="genomic RNA" /isolate="GII/Hu/JP/2022/GII.4Sydney[P16]/TKY221104" /isolation_source="feces" /host="Homo sapiens" /db_xref="taxon:1776356" /country="Japan" /collection_date="2022-12" gene <1..5090 /gene="POL" CDS <1..5090 /gene="POL" /codon_start=3 /product="nonstructural polyprotein" /protein_id="BEV21188.1" /translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA PRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPGVA NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA RVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIK PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG LLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE LKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKHA RIRYYVKCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPKP EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE IRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI TSTHVIPVGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKP PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGET FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMI RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGL KPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED PNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFR WMRFSDLSTWEGDRNLAPNFVNEDGVE" gene 5071..6693 /gene="VP1" CDS 5071..6693 /gene="VP1" /codon_start=1 /product="capsid protein VP1" /protein_id="BEV21189.1" /translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV" gene 6693..7499 /gene="VP2" CDS 6693..7499 /gene="VP2" /codon_start=1 /product="capsid protein VP2" /protein_id="BEV21190.1" /translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN APMTKALDWSGTRYWAPDARVTTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV" ORIGIN 1 cgtctaacga cgctaccgtt gccgttgctt gcaacaacaa caacgacaag gaaaaatctt 61 caggtgaagg cttattcaca aatatgtctt ccaccttaaa gaaagccctc ggggctaggc 121 ccaaacagcc tgccccgaga gacgaaccac aaaagccccc aagaccacca actcccgagt 181 tgatcaagag gatacccccc cctccaccta atggcgagga agaaggagaa ccagtcatta 241 ggtatgaggt taagagtggg gtctctggcc tgcccgagct cacaacagtc ccccaaccgg 301 gcgtggccaa cacagcattt agtgttccac cactgagctt gagagaaaac agggaggcca 361 aggagccgtt aacaggggca atactagaga tgtgggacgg agagatatac cactatggcc 421 tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc ataagcatgg 481 cgagagtgga gctaacgccg ctgtcattgt attggcgtgt ggtgtacact ccccaatacc 541 tcatctcccc tgaaactctc aagaggctca acggagaggc gtttccttac accgctttcg 601 acaacaactg ctatgccttt tgctgctggg tgttagacct caatgattca tggcttagca 661 ggagaatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg aacagaaaac 721 ccctgcccac catggatgac tccaaaataa agaaggtagc aaatatattc ctatgttcat 781 tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa ccattaaaca 841 tattgaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag tctctgatat 901 tgcttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct atgatcgctc 961 ccttactcgg ggactacgag ttgcaagggc cagaagacct cgccgttgaa ctcgtacctg 1021 tggtaatggg agggattggc ttggtgttgg gattcaccaa agagaaaatt ggcaaaatgc 1081 tgtcctcagc agcatcaaca ctcagggctt gtaaagatct tggtgcctat ggcttagaga 1141 tactcaaatt ggtcatgaag tggttcttcc caaagaaaga ggaggccaat gagttagcca 1201 tggtaagggc catagaggat gccgtactag atcttgaggc aatagaaaat aaccacatga 1261 caaccctgtt gaaagacaaa gacagcttag caacatacat gaaaacactg gacatggagg 1321 aggagaaagc cagaaggttg tccacaaaat ctgcatcccc tgacatagtt gggacaatca 1381 acgccctgct ggctcgaata gcagcggcca ggtcattagt ccacagggcc aaggaagaac 1441 tgtctagcag gataaggcca gtagttgtta tgatatctgg caaaccagga ataggcaaaa 1501 ctcatctggc cagggaggtg gcaagaaagg tggcatccac tctcacaggg gatcagagag 1561 tcggactcat accaagaaac ggtgtggatc attgggatgc atacaaaggt gagagagtcg 1621 tgttgtggga cgactatggc atgagtaacc ccattcatga tgctctccgc atacaagaat 1681 tggctgatac gtgccccctt actttaaatt gtgacagaat tgaaaataag ggaaaagttt 1741 ttgacagtga agtcataata attacaacaa accttgccaa cccagcccca cttgattatg 1801 tcaactttga ggcctgttcc aggagaattg atttcctggt gtacgctgag gcaccagaag 1861 tagaaaaggc aaaacgggat tttcctggtc agccagatat gtggaaggac gccttcaagc 1921 cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac aagaatggca 1981 acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg attgcccgtg 2041 catcaggcct actgcatgag aggatggatg aatttgaact ccaaggtccc acaatcacca 2101 ctttcaattt cgaccggaac agaattacag cattcagaca attggctgca gaaaacaagt 2161 atggactggt ggacaccatg aaagttggca atcaactaaa aggagtgaaa accatggaag 2221 aactcaaaca agcaatcagg aatgtgacca tcaagaggtg ccggatcatc tacggtggct 2281 ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtggaaaag gtcaagaacg 2341 cctctataca gaccaacaac gagttggtcg gggccctgca ccatcttaaa catgcccgaa 2401 tcaggtacta tgtcaaatgt gtgcaagaag cagtctattc catcatgcaa atcgccggcg 2461 ctgcgtttgt caccacgcgt attgcacgcc gcatgaacat acaagaactc tggtcgaagc 2521 cacaattaga tcaaaatgaa tcagagtcca aggaagaggc ccccaagcca gaagatgacg 2581 agttcatcat atcttctaag gatatcaagg aggaaggaaa gaagggcaaa aacaaaactg 2641 gccgtggcaa gaaacacact gcattctcca gcaagggctt gagcgatgag gagtatgacg 2701 agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag taccttcaag 2761 acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagaa gacttctgtg 2821 aagaggagga gattaaaatc cgtcagagaa ttttccgtcc caccaggaaa caaagaaagg 2881 aagagagggc cacactaggg ctggtgacag gttcagaaat cagaagaaga aaccctgatg 2941 acttcaaacc caaagggaag ctgtgggccg atgacaacag aagtgttgac tacaatgaga 3001 aactggactt tgaggccccc ccaagcatat ggtctaggat tgtgagcttt ggttctggtt 3061 ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtgatc cctgtaggca 3121 taacagaagc atttggagtc cccatcaaac aaattcagat ccacaaatca ggtgagtttt 3181 gtcgattcag attcccaaaa ccaatcagac cagatgtgac aggaatgatc ttggaagaag 3241 gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga gagctcatgc 3301 ctcttgcagc cagaatggga acacacgcaa ccatgaagat tcagggccgc atggttggcg 3361 gacagatggg tatgttgctc actggatcaa atgccaaagg aatggatttg ggaacaaccc 3421 ctggtgactg tggctgccct tacatctata aaagaggcaa tgactatgta gtcattgggg 3481 tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag ggaagtgagg 3541 gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca cccattctag 3601 gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca tcgaacacgc 3661 cccttccacc agggacatat gaacctgcct acctcggtgg ccgtgaccca cgtgttaggg 3721 gtgggccctc cttacagcag gtaatgagag accagttgaa gccattcact gaacccaggg 3781 gcaagcctcc aagaccaagt gttttggaag cagccaaaca aactattatc aatgtccttg 3841 aacaaaccct ggatcctcca caaaaatgga catacgcgca ggcgtgtgcc tcacttgaca 3901 aaaccacctc cagcgggcat ccccatcacg tccgaaagaa tgaattctgg agtggtgaga 3961 ccttcactgg taaattggct gaccaagcat caaaagcaaa cctaatgttt gaggaaggga 4021 aacacatgac accagtgtac acagcagcac tcaaggatga gctagttaag actgagaaaa 4081 tctatggaaa aatcaagaag agactgctct ggggctctga cctgtccacc atgatccggt 4141 gcgctaggtc atttggtggg ctcatggacg agatgaaggc acactgcata tcactcccag 4201 tacgagttgg catgaatatg aatgaagatg gtccaataat atttgagaaa cattccagat 4261 acaaatatca ctatgatgca gattactctc gttgggattc aacacaacag agggcagtat 4321 tagcagcagc cttggaaatc atggtcagat tctctgcaga accgcaattg gcacaaatag 4381 tcgctgagga tctactggcc cctagtgtag tagatgtagg agactttaaa atcacaataa 4441 atgaggggct accatctggc gtgccatgca cttctcaatg gaactccatc gcacactggc 4501 tgctaactct ctgtgccttg tctgaagtca ccaaactatc ccctgacatt atacaagcaa 4561 attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata aagttggacc 4621 ctgaacagtt gaccgccaag ttgaaagagt acggcctgaa accaacccgc ccagacaaga 4681 ccgagggacc cctgatcatc agtgaagatt tggacggact tactttcctc cgaaggacgg 4741 tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt ttgaggcaga 4801 tgtattggac tagaggacca aatcatgaag accccaacga gacaatgata ccccattctc 4861 aaagacccat acagctcatg gcactgcttg gtgaagcctc tcttcacgga ccctctttct 4921 acagtagaat cagtaaattg gttataactg agcttaaaga aggtgggatg gacttttacg 4981 tgccaaggca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc acgtgggagg 5041 gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgagtga cgccaaccca 5101 tctgatgggt ccgcagccaa cctcgtacca gaggtcaaca atgaggttat ggctttggag 5161 cccgttgttg gtgccgctat tgcggcacct gtagcgggcc aacaaaatgt aattgacccc 5221 tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtgtc ccccagaaat 5281 gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc ctacctatcc 5341 catctggcca ggatgtacaa tggttatgca ggtggctttg aagtgcaggt aattctcgcg 5401 gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa ttttccaact 5461 gaaggcttaa gtcctagcca ggtcactatg ttcccccata taatagtaga tgttagacaa 5521 ttggaacctg tgctgatccc cttgcccgat gttaggaata atttctacca ttacaatcag 5581 tcaaatgact ccactattaa gttgatagca atgttgtaca caccacttag ggctaataat 5641 gctggggatg atgttttcac agtctcgtgt cgagttctca cgaggccatc ccccgatttt 5701 gatttcatat tcttagtacc acccacagtt gagtcaagaa ccaaaccatt ctccgtccca 5761 gttttaactg ttgaggagat gaccaactca agattcccca tccctttgga aaagttgttc 5821 acaggcccca gcagtgcatt tgttgttcaa ccacaaaacg gcagatgcac aactgatggc 5881 gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag aggggatgtc 5941 acccacatca caggcagtca caactacact atgaatttgg cttctcaaaa ttggaacaac 6001 tacgacccga cagaagaaat cccagctccc ctaggaactc cagattttgt ggggaagatt 6061 caaggcatgc tcacccaaac cacaaggaca gatggttcaa cacgcggcca caaagctaca 6121 gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaactgac 6181 acaaaccatg attttgaagc caatcaaaac acaaagttca ccccagtcgg tgtcatccaa 6241 gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag ttactcaggc 6301 agaaatactc acaatgtaca tttagccccc gctgtagccc ccacctttcc gggtgagcaa 6361 cttctcttct ttagatctac catgcccgga tgcagcgggt accccaacat ggatttggac 6421 tgtctgctcc cccaggaatg ggtgcagtac ttttaccaag aggcagcccc agcacaatct 6481 gatgtggctc tgctaagatt tgtgaatcca gacacaggta gggttttgtt tgagtgcaag 6541 cttcacaaat caggctatgt tacagtggct cacactggcc aacatgattt ggttatcccc 6601 cccaatggtt actttaggtt tgattcctgg gtcaaccagt tctacacgct tgcccccatg 6661 ggaaatggaa cggggcgtag acgtgcagta taatggctgg agctttcttt gctggattgg 6721 catctgatgt ccttggctct ggacttggtt cccttatcaa cgctggggct ggggccatca 6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca ggcatccttc caatttagca 6841 gcaatttgca acaggcttcc tttcaacatg ataaagagat gctccaagca caaattgagg 6901 ccaccaaaaa gctacaacag gaaatgatga gagttaagca ggcaatgctc ctagagggtg 6961 ggttctctga gacagatgcg gcccgcgggg caattaacgc ccccatgaca aaggctttgg 7021 actggagcgg gacaaggtac tgggctccag atgctagagt tacaacatac agtgcaggcc 7081 acttttccac ccctcaacca tcgggggcac tgccaggaag agctaatctt agggatgctg 7141 cccctgctcg gggaccctcc accagacctt ctaactcttc tactgccacc tctgtgtatt 7201 caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc agtgtctcga 7261 gcctcccgtc aactgcaagg actaggagct gggttgagga tcaaaatagg aatttgtctc 7321 ctttcatgag gggggcccac aacatatcat ttgtcacccc accatctagc agatcctcta 7381 gccaaggcac agtctcaacc gtgcctaaag aaattttgga ctcctggact ggcgctttca 7441 acacgcgcag gcagcctctc ttcgctcaca ttcgtaagcg aggggagtca cgggtgtaat 7501 gtgaaaagac aaaactgatt attttctttt tcttttcttt //