Typing tool
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Typing tool
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Complete norovirus genomes
| LC790060 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5092
ORF2: 5073..6695
ORF3: 6695..7501
LOCUS LC790060 7542 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221268 RNA, nearly complete genome.
ACCESSION LC790060
VERSION LC790060.1
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JOURNAL Unpublished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 7542)
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..7542
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221268"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-01"
gene <1..5092
/gene="POL"
CDS <1..5092
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21194.1"
/translation="ASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP
APRDEPQKPPRPPTPELIRRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPGV
TNTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM
ARVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI
KPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA
RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP
LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME
ELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKH
ARIRYYVKCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPK
SEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS
EIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF
ITSTHVIPVGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA
TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGK
PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGE
TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM
IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ
QRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG
LKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE
DPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5073..6695
/gene="VP1"
CDS 5073..6695
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21195.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEETPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6695..7501
/gene="VP2"
CDS 6695..7501
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21196.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 ggcgtctaac gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc
61 ttcaggtgaa ggcttattca caaatatgtc ttccacctta aagaaagccc tcggggctag
121 gcccaaacag cctgccccga gagacgaacc acaaaagccc ccaagaccac caactcccga
181 gttgatcagg aggatacccc cccctccacc taatggcgag gaagaaggag aaccagtcat
241 taggtatgag gttaagagtg gggtctctgg cctgcccgag ctcacaacag tcccccaacc
301 gggcgtgacc aacacagcat ttagtgttcc accactgagc ttgagagaaa acagggaggc
361 caaggagccg ttaacagggg caatactaga gatgtgggac ggagagatat accactatgg
421 cctgtacgtg gagaaaggct tagtgttggg tgtgcacaaa ccacctgcag ccataagcat
481 ggcgagagtg gagctaacgc cgctgtcatt gtattggcgt gtggtgtaca ctccccaata
541 cctcatctcc cctgaaactc tcaagaggct caacggagag gcgtttcctt acaccgcttt
601 cgacaacaac tgctatgcct tttgctgctg ggtgttagac ctcaatgatt catggcttag
661 caggagaatg gtgcaaagaa caacgggctt cttcagacct taccaagagt ggaacagaaa
721 acccctgccc accatggatg actccaaaat aaagaaggta gcaaatatat tcctatgttc
781 attgtccaca ttattcacca gacccataaa agacctcata ggaaaaatta aaccattaaa
841 catattgaac atcctggcaa cgtgtgactg gacgtttgcc ggaatagtgg agtctctgat
901 attgcttgct gaactcttcg gagttttctg gacaccccca gatgtgtctg ctatgatcgc
961 tcccttactc ggggactacg agttgcaagg gccagaagac ctcgccgttg aactcgtacc
1021 tgtggtaatg ggagggattg gcttggtgtt gggattcacc aaagagaaaa ttggcaaaat
1081 gctgtcctca gcagcatcaa cactcagggc ttgtaaagat cttggtgcct atggcttaga
1141 gatactcaaa ttggtcatga agtggttctt cccaaagaaa gaggaggcca atgagttagc
1201 catggtaagg gccatagagg atgccgtact agatcttgag gcaatagaaa ataaccacat
1261 gacaaccctg ttgaaagaca aagacagctt agcaacatac atgaaaacac tggacatgga
1321 ggaggagaaa gccagaaggt tgtccacaaa atctgcatcc cctgacatag ttgggacaat
1381 caacgccctg ctggctcgaa tagcagcggc caggtcatta gtccacaggg ccaaggaaga
1441 actgtctagc aggataaggc cagtagttgt tatgatatct ggcaaaccag gaataggcaa
1501 aactcatctg gccagggagg tggcaagaaa ggtggcatcc actctcacag gggatcagag
1561 agtcggactc ataccaagaa acggtgtgga tcattgggat gcatacaaag gtgagagagt
1621 cgtgttgtgg gacgactatg gcatgagtaa ccccattcat gatgctctcc gcatacaaga
1681 attggctgat acgtgccccc ttactttaaa ttgtgacaga attgaaaata agggaaaagt
1741 ttttgacagt gaagtcataa taattacaac aaaccttgcc aacccagccc cacttgatta
1801 tgtcaacttt gaggcctgtt ccaggagaat tgatttcctg gtgtacgctg aggcaccaga
1861 agtagaaaag gcaaaacggg attttcctgg tcagccagat atgtggaagg acgccttcaa
1921 gccggacttt tcacacatca agctacagct tgcacctcag ggcggctttg acaagaatgg
1981 caacacccca catgggaaag gagtgatgaa gaccctcact accggttctc tgattgcccg
2041 tgcatcaggc ctactgcatg agaggatgga tgaatttgaa ctccaaggtc ccacaatcac
2101 cactttcaat tttgaccgga acagaatcac agcattcaga caattggctg cagaaaacaa
2161 gtatggactg gtggacacca tgaaagttgg caatcaacta aaaggagtga aaaccatgga
2221 agaactcaaa caagcaatca ggaatgtgac catcaagagg tgccggatca tctacggtgg
2281 ctccacgtat gaccttgaat ctgatggcaa gggcaaagtt ttggtggaaa aggtcaagaa
2341 cgcctctata cagaccaaca acgagttggt cggggccctg caccatctta aacatgcccg
2401 aatcaggtac tatgtcaaat gtgtgcaaga agcagtctat tccatcatgc aaatcgccgg
2461 cgctgcgttt gtcaccacgc gcattgcacg ccgcatgaac atacaagaac tctggtcgaa
2521 gccacaatta gatcaaaatg aatcagagtc caaggaagag gcccccaagt cagaagatga
2581 cgagttcatc atatcttcta aggatatcaa ggaggaagga aagaagggca aaaacaaaac
2641 tggccgtggc aagaaacaca ctgcattctc cagcaagggc ttgagcgatg aggagtatga
2701 cgagtacaag aggataagag aagagagaaa tgggaagtac tctatagagg agtaccttca
2761 agacagagac aggtactatg aggagctcgc cattgccaag gccacggaag aagacttctg
2821 tgaagaggag gagatcaaaa tccgtcagag aattttccgt cccaccagga aacaaagaaa
2881 ggaagagagg gccacactag ggctggtgac aggttcagaa atcagaagaa gaaaccctga
2941 tgacttcaaa cccaaaggga agctgtgggc cgatgacaac agaagtgttg actacaatga
3001 gaaactggac tttgaggccc ccccaagcat atggtctagg attgtgagct ttggttctgg
3061 ttggggcttc tgggtatcac caagcctgtt cataacatca actcatgtga tccctgtagg
3121 cataacagaa gcatttggag tccccatcaa acaaattcag atccacaaat caggtgaatt
3181 ttgtcgattc agattcccaa aaccaattag accagatgtg acaggaatga tcttggaaga
3241 aggtgcgcct gaaggcaccg tggcaactgt gctcatcaaa cgccccaccg gagagctcat
3301 gcctcttgca gccagaatgg gaacacacgc aaccatgaag attcaaggcc gcatggttgg
3361 cggacagatg ggtatgttgc tcactggatc aaatgccaaa ggaatggatt tgggaacaac
3421 ccctggtgac tgtggctgcc cttacatcta taaaagaggc aatgactatg tagtcattgg
3481 ggtgcacact gcagcagccc gtggtggaaa caccgtcatc tgtgccacac agggaagtga
3541 gggtgaggca actcttgagg gtggagatga caaaggaaca tactgtgggg cacccattct
3601 aggccctggg ggcgcaccaa aattgagcac caaaaccaaa ttttggaggt catcgaacac
3661 gccccttccg ccagggacat atgaacctgc ctacctcggt ggccgtgacc cacgtgttag
3721 gggtgggccc tccttacagc aggtaatgag agaccagttg aagccattca ctgaacccag
3781 gggcaagcct ccaagaccaa gtgttttgga agcagccaaa caaactatta tcaatgtcct
3841 tgaacaaacc ctggatcctc cacaaaaatg gacatacgcg caggcgtgtg cctcacttga
3901 caaaaccacc tccagcgggc atccccatca cgtccgaaag aatgaattct ggagtggtga
3961 gaccttcact ggtaaattgg ctgaccaagc atcaaaagca aacctaatgt ttgaggaagg
4021 gaaacacatg acaccagtgt acacagcagc actcaaggat gagctagtta agactgagaa
4081 aatctatgga aaaatcaaga agagactgct ctggggctct gacctgtcca ccatgatccg
4141 gtgcgctagg tcatttggtg ggctcatgga cgagatgaag gcacactgca tatcactccc
4201 agtacgagtt ggcatgaata tgaatgaaga tggtccaata atatttgaga aacattccag
4261 atacaaatat cactatgatg cagattactc tcgttgggat tcaacacaac agagggcagt
4321 attagcagca gccttggaaa tcatggtcag attctctgca gaaccacaat tggcacaaat
4381 agtcgctgag gatctactgg cccctagtgt agtagatgta ggagacttta aaatcacaat
4441 aaatgagggg ctaccatctg gcgtgccatg cacttctcaa tggaactcca tcgcacactg
4501 gctgctaact ctctgtgcct tgtctgaagt caccaaacta tcccctgaca ttatacaagc
4561 aaattccatg ttctcatttt acggtgatga cgagattgtc agcaccgaca taaagttgga
4621 ccctgaacag ttgaccgcca agttgaagga gtacggcctg aaaccaaccc gcccagacaa
4681 gaccgaggga cccctgatca tcagtgaaga tttggacgga cttactttcc tccgaaggac
4741 ggtgactcgt gacccagctg gctggtttgg aaaactggac caaagttcaa ttttgaggca
4801 gatgtattgg actagaggac caaatcatga agaccccaac gagacaatga taccccattc
4861 tcaaagaccc atacagctca tggcactact tggtgaagcc tctcttcacg gaccctcttt
4921 ctacagtaga atcagtaaat tggttataac tgaacttaaa gaaggtggga tggactttta
4981 cgtgccaagg caggaaccca tgttcaggtg gatgaggttt tctgacttga gcacgtggga
5041 gggcgatcgc aatctggctc ccaattttgt gaatgaagat ggcgtcgagt gacgccaacc
5101 catctgatgg gtccgcagcc aacctcgtac cagaggtcaa caatgaggtt atggctttgg
5161 agcccgttgt tggtgccgct attgcggcac ctgtagcggg ccaacaaaat gtaattgacc
5221 cctggattag aaataatttt gtacaagccc ctggtgggga gtttacagtg tcccccagaa
5281 atgctccagg tgaaatacta tggagcgcgc ccctaggccc tgacctaaat ccctacctat
5341 cccatctggc caggatgtac aatggttatg caggtggctt tgaagtgcag gtaattctcg
5401 cggggaacgc gttcaccgcc gggaagatta tatttgcagc agtcccacca aattttccaa
5461 ctgaaggctt aagtcctagc caagtcacta tgttccccca tataatagta gatgttagac
5521 aattggaacc tgtgctgatc cccttgcccg atgttaggaa taatttctat cattacaatc
5581 agtcaaatga ctccactatt aagttgatag caatgttgta cacaccactt agggctaata
5641 atgctgggga tgatgttttc acagtctcgt gtcgagttct cacgagacca tcccccgatt
5701 ttgatttcat attcttagta ccacccacag ttgagtcaag aaccaaacca ttctccgtcc
5761 cagttttaac tgttgaggag atgaccaact caagattccc catccctttg gaaaagttgt
5821 tcacaggccc cagcagtgca tttgttgttc aaccacaaaa cggcagatgc acaactgatg
5881 gcgtgctcct aggcaccacc caactttctc ctgtcaacat ctgcaccttc agaggggatg
5941 tcacccacat cacaggcagt cacaactaca ctatgaattt ggcttctcaa aattggaaca
6001 actacgaccc gacagaagaa accccagctc ccctaggaac tccagatttt gtggggaaga
6061 ttcaaggcat gctcacccaa accacaagga cagatggttc aacacgcggc cacaaagcta
6121 cagtgtacac tgggagcgcc gactttgctc caaaactggg tagagttcaa tttgaaactg
6181 acacaaacca tgattttgaa gccaatcaaa acacaaagtt caccccagtc ggtgtcatcc
6241 aagatggtag caccacccac cgaaacgaac cccaacagtg ggtgctccca agttactcag
6301 gcagaaatac tcacaatgta catttagccc ccgccgtagc ccccaccttt ccgggtgagc
6361 aacttctctt ctttagatct accatgcccg gatgcagcgg gtaccccaac atggatttgg
6421 actgtctgct cccccaggaa tgggtgcagt acttttacca agaggcagcc ccagcacaat
6481 ctgatgtggc tctgctaaga tttgtgaatc cagacacagg tagggttttg tttgagtgca
6541 agcttcacaa atcaggctat gttacggtgg ctcatactgg ccaacatgat ttggttatcc
6601 cccccaatgg ttactttcgg tttgattcct gggtcaacca gttctacacg cttgccccca
6661 tgggaaatgg aacggggcgt agacgtgcag tataatggct ggagctttct ttgctggatt
6721 ggcatctgat gtccttggct ctggacttgg ttcccttatc aatgctgggg ctggggccat
6781 caaccaaaaa gttgagtttg aaaataacag aaaattgcaa caggcatcct tccaatttag
6841 cagcaatttg caacaggctt cctttcaaca tgataaagag atgctccaag cacaaattga
6901 ggccaccaaa aagctacaac aggaaatgat gagagttaag caggcaatgc tcctagaggg
6961 tgggttctct gagacagatg cggcccgcgg ggcaattaac gcccccatga caaaggcttt
7021 ggactggagc gggacaaggt actgggctcc agatgctaga attacaacat acagtgcagg
7081 ccacttttcc acccctcaac catcgggggc attgccagga agagctaatc ttagggatgc
7141 tgcccctgct cggggaccct ccaccagacc ttctaactct tctactgcca cctctgtgta
7201 ttcaaatcaa actatttcaa cgagacttgg ttctacagct ggttctggaa ccagtgtctc
7261 gagcctcccg tcaactgcaa ggactaggag ctgggttgag gatcaaaata ggaatttgtc
7321 tcctttcatg aggggggccc acaacatatc atttgtcacc ccaccatcta gcagatcctc
7381 tagccaaggc acagtctcaa ccgtgcctaa agaaattttg gactcctgga ctggcgcttt
7441 caacacgcgc aggcagcctc tcttcgctca cattcgtaag cgaggggagt cacgggtgta
7501 atgtgaaaag acaaaaatga ttattttctt tttcttttct tt
//