Typing tool
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Typing tool
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Complete norovirus genomes
| LC790065 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5090
ORF2: 5071..6693
ORF3: 6693..7499
LOCUS LC790065 7536 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221466 RNA, nearly complete genome.
ACCESSION LC790065
VERSION LC790065.1
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JOURNAL Unpublished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 7536)
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..7536
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221466"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-01"
gene <1..5090
/gene="POL"
CDS <1..5090
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BEV21209.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPDVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
RVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE
LKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKHA
RIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKS
EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPVGITEAFGVPIKQIQIHKSGEFCRFRFPRPIRPDVTGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMV
RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5071..6693
/gene="VP1"
CDS 5071..6693
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21210.1"
/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="BEV21211.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGHFSTLQQSGTLPGRANLRDAVPARGPSTRPS
NSSIATSVYSNQTISTRLGSTAGSGTSVSNLPSTARTRSWVEDQNRNLSPFMRGAHNI
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 atggcgaaga agaaggagaa ccagtcatta
241 ggtatgaggt taagagtggg gtctctggcc tgcccgagct cactacagtc ccccaaccgg
301 acgtggccaa cacagcattt agtgttccac cactgagctt gagagaaaac agggaggcca
361 aggagccgct aacaggggca atactagaga tgtgggacgg agagatatac cactatggtc
421 tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagcc ataagcatgg
481 cgagagtgga gttgacgccg ttgtcactgt actggcgtgt ggtgtacact ccccaatacc
541 tcatctcccc tgaaactctc aagaggctca acggagaggc gtttccttac accgctttcg
601 acaataactg ctatgccttt tgctgctggg tgttagacct caatgattca tggcttagca
661 ggaggatggt gcaaagaaca acgggcttct tcagacctta ccaagagtgg aacagaaaac
721 ccttgcccac catggatgac tccaaaataa agaaggtagc aaatatattc ctatgttcat
781 tgtccacatt attcaccaga cccataaaag acctcatagg aaaaattaaa ccattaaaca
841 tattaaacat cctggcaacg tgtgactgga cgtttgccgg aatagtggag tctctgatat
901 tgcttgctga actcttcgga gttttctgga cacccccaga tgtgtctgct atgatcgctc
961 ccttactcgg ggactacgag ttgcaggggc cagaagacct cgccgttgaa ctcgtacctg
1021 tggtgatggg agggattggc ttggtgttgg gattcaccaa agagaaaatt ggcaaaatgc
1081 tgtcctcagc agcatcaaca ctcagggctt gtaaagatct tggtgcctat ggcttagaga
1141 tactcaaatt agtcatgaag tggttcttcc caaagaagga ggaagccaat gagctagcca
1201 tggtgagggc catagaggat gccgtactag accttgaggc 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 cgactatggt atgagcaacc ccattcatga tgctctccgc atacaagaat
1681 tggctgatac gtgtcccctt accttaaatt gtgacagaat tgaaaataag ggaaaagttt
1741 ttgacagtga agtcataata attacaacaa accttgccaa tccagcccca cttgattatg
1801 tcaactttga ggcctgttcc aggagaattg atttcctggt gtatgctgag gcaccagaag
1861 tagaaaaggc aaaacgggat tttcctggtc agccagatat gtggaaggac gccttcaagc
1921 cggacttttc acacatcaag ctacagcttg cacctcaggg cggctttgac aagaatggca
1981 acaccccaca tgggaaagga gtgatgaaga ccctcactac cggttctctg attgcccgtg
2041 catcaggcct actacatgag aggatggatg aatttgaact ccaaggtccc acaatcacca
2101 ctttcaattt cgaccggaac agaatcacag cattcagaca attggctgca gaaaacaagt
2161 atggactggt ggataccatg 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 catcatacaa attgccggcg
2461 ctgcgtttgt caccacgcgt attgcacgcc gcatgaacat acaagaactc tggtcgaagc
2521 cacaattaga tcaaaatgaa tcagagacca aggaagaggc ccccaagtca gaagatgacg
2581 agttcatcat atcttctaag gatatcaagg aggaaggaaa gaagggcaaa aacaaaactg
2641 gccgtggcaa gaagcacact gcattctcca gcaagggctt gagcgatgag gagtatgacg
2701 agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag tatcttcaag
2761 acagagacag gtactatgag gagctcgcca ttgccaaggc cacggaagag gacttctgtg
2821 aagaggagga gatcaaaatc cgtcagagaa ttttccgtcc caccaggaaa caaagaaagg
2881 aagagagggc cacactaggg ctggtgacag gttcagaaat cagaagaaga aaccctgatg
2941 acttcaaacc caaagggaag ctgtgggccg atgataacag aagtgttgac tacaatgaga
3001 aactggactt tgaggccccc ccaagtatat ggtctaggat tgtgagcttt ggttctggct
3061 ggggcttctg ggtatcacca agtttgttca taacatcaac tcatgtgatc cctgtaggca
3121 taacagaagc atttggagtc cccatcaagc aaattcagat ccacaaatca ggtgaatttt
3181 gtcgattcag attcccaaga ccaattagac cagatgtgac aggaatgatc ttggaagaag
3241 gtgcgcctga aggcaccgtg gcaactgtgc tcatcaaacg ccccaccgga gagctcatgc
3301 ctcttgcagc cagaatggga acacacgcaa ccatgaagat tcaaggccgc atggttggcg
3361 ggcagatggg tatgttgctc actggatcaa atgccaaagg aatggatttg ggaacaactc
3421 ctggtgactg tggctgtcct tacatctata aaaggggcaa tgactatata gtcattgggg
3481 tgcacactgc agcagcccgt ggtggaaaca ccgtcatctg tgctacacag ggaagtgagg
3541 gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggggca cccattctag
3601 gccctggggg cgcaccaaaa ttgagcacca aaaccaaatt ttggaggtca tcgaacacgc
3661 cccttccacc agggacatat gagcctgcct acctcggtgg ccgtgaccca cgtgttaggg
3721 gtgggccctc cttacagcag gtaatgagag accagttgaa gccattcact gaacccaggg
3781 gcaaacctcc aagaccaagt gttttggaag cagccaaaca aactatcatc aacgtccttg
3841 aacaaaccct ggatcctcca caaaaatgga catacgcgca ggcgtgtgcc tcacttgaca
3901 aaaccacctc cagcgggcat ccccatcacg cccgaaagaa tgaattctgg aatggtgaga
3961 ccttcactgg caaattggca gaccaagcat caaaagcaaa cctaatgttt gaggaaggga
4021 aacacatgac accagtgtac acagcagcac tcaaggatga gctagttaag actgagaaaa
4081 tctatggaaa gatcaagaag agactgctct ggggctctga cctgtccacc atggtccggt
4141 gcgctaggtc atttggtggg ctcatggatg agatgaaggc acattgcata tcactcccag
4201 tacgagttgg catgaacatg aatgaagatg gcccaataat atttgagaaa cattccagat
4261 acaaatacca ctatgatgca gactactctc gttgggattc aacacaacag agggcagtgt
4321 tggcagcagc cttggaaatc atggtcagat tctctgcaga accacaattg gcacaaatag
4381 tcgctgagga tctactggca cctagtgtag tagatgtagg agactttaaa atcacaataa
4441 atgaagggct cccatctggc gtgccatgca cttctcaatg gaattccatc gcacactggc
4501 tgctaactct ctgtgccttg tctgaagtca ccaaactatc ccctgacatc atacaagcaa
4561 attccatgtt ctcattttac ggtgatgacg agattgtcag caccgacata aagttggacc
4621 ctgaacagtt gaccgccaag ttgaaggagt acggcctgaa accaacccgc ccagacaaga
4681 ccgaggggcc cctgatcatc agtgaagact tgaacggact cactttcctc cgaaggacgg
4741 tgactcgtga cccagctggc tggtttggaa aactggacca aagttcaatt ttgaggcaga
4801 tgtactggac tagaggacca aaccatgaag accccaatga gacaatgata ccccactctc
4861 aaagacccat acagctcatg gcactgcttg gtgaagcttc tcttcacgga ccctctttct
4921 acagtagaat cagtaaattg gtcataactg aacttaaaga 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 gtggcgggcc aacaaaatgt aattgacccc
5221 tggattagaa ataattttgt acaagcccct ggtggggagt ttacagtatc ccctagaaat
5281 gctccaggtg aaatactatg gagcgcgccc ctaggccctg acctaaatcc ctacctatcc
5341 catttggcca ggatgtacaa tggttatgca ggtggctttg aagtgcaggt aattctcgcg
5401 gggaacgcgt tcaccgccgg gaagattata tttgcagcag tcccaccaaa ttttccaact
5461 gaaggcctaa gccctagcca ggtcactatg ttcccccata taatagtaga tgttagacaa
5521 ttggaacctg tgctgatccc cttacccgat gttaggaata atttctatca ttacaatcag
5581 tcaaatgact ccactattaa gttgatagca atgctgtaca caccacttag ggctaataat
5641 gctggggatg atgttttcac agtttcgtgc cgagttctca caagaccatc ccccgatttt
5701 gatttcatat tcttagtacc acccacagtc gagtcaagaa ctaaaccatt ctccgtccca
5761 gttttaactg ttgaggagat gaccaattca agattcccca tccctttgga aaagttgttc
5821 acaggcccca gcagtgcatt tgttgttcaa ccacaaaacg gcagatgcac aactgatggc
5881 gtgctcctag gcaccaccca actttctcct gtcaacatct gcaccttcag aggggatgtc
5941 acccacatca caggtagtca caactacact atgaatttgg cttcccaaaa ttggaacaac
6001 tacgacccaa cagaagaaat cccagctccc ctaggaactc cagattttgt ggggaagatt
6061 caaggcatgc tcacccaaac cacgaggaca gatggttcaa cacgcggcca caaagctaca
6121 gtgtacactg ggagcgccga ctttgctcca aaactgggta gagttcaatt tgagactgac
6181 acaaaccatg attttgaagc taatcaaaac acaaagttca ccccagtcgg tgtcatccaa
6241 gatggtagca ccacccaccg aaacgaaccc caacagtggg tgctcccaag ttactcaggc
6301 agaaatactc acaatgtaca tttggccccc gctgtagccc ccacctttcc gggtgagcaa
6361 cttctcttct ttagatctac catgcccgga tgcagcgggt accccaacat ggatttggac
6421 tgtctgctcc cccaggaatg ggtgcagtac ttctaccaag aggcagctcc 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 tgctggggct ggggccatca
6781 accaaaaagt tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca
6841 gcaatttgca acaggcttcc tttcaacatg ataaagagat gctccaagca caaattgagg
6901 ccaccaaaaa gctacaacag gaaatgatga gagttaagca ggcaatgctc ctagagggtg
6961 ggttctctga gacagatgcg gcccgtgggg caattaatgc ccccatgaca aaggctttgg
7021 actggagcgg aacaaggtac tgggctccag atgctagaat tacaacatac aatgcaggcc
7081 acttttccac ccttcaacaa tcggggacac tgccaggaag agctaacctt agggatgctg
7141 tccctgctcg gggaccctcc accagacctt ctaactcttc tattgctacc tctgtgtatt
7201 caaatcaaac tatttcaacg agacttggtt ctacagctgg ttctggaacc agtgtctcga
7261 acctcccgtc 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 tctttt
//