Typing tool
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Typing tool
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Complete norovirus genomes
| LC790059 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5093
ORF2: 5074..6696
ORF3: 6696..7502
LOCUS LC790059 7541 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2022/GII.4Sydney[P16]/
TKY221212 RNA, nearly complete genome.
ACCESSION LC790059
VERSION LC790059.1
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JOURNAL Unpublished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 7541)
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..7541
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2022/GII.4Sydney[P16]/TKY221212"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2022-12"
gene <1..5093
/gene="POL"
CDS <1..5093
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BEV21191.1"
/translation="ASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQP
APRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPGV
ANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISM
ARVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSW
LSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKI
KPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDL
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVA
RKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCP
LTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKA
KRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARAS
GLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTME
ELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKH
ARIRYYVKCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPK
PEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS
EIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLF
ITSTHVIPVGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVA
TVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGG
APKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGK
PPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGE
TFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTM
IRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQ
QRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYG
LKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHE
DPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5074..6696
/gene="VP1"
CDS 5074..6696
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21192.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6696..7502
/gene="VP2"
CDS 6696..7502
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21193.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tggcgtctaa cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaggaaaaat
61 cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta
121 ggcccaaaca gcctgccccg agagacgaac cacaaaagcc cccaagacca ccaactcccg
181 agttgatcaa gaggataccc ccccctccac ctaatggcga ggaagaagga gaaccagtca
241 ttaggtatga ggttaagagt ggggtctctg gcctgcccga gctcacaaca gtcccccaac
301 cgggcgtggc caacacagca tttagtgttc caccactgag cttgagagaa aacagggagg
361 ccaaggagcc gttaacaggg gcaatactag agatgtggga cggagagata taccactatg
421 gcctgtacgt ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagca
481 tggcgagagt ggagctaacg ccgctgtcat tgtattggcg tgtggtgtac actccccaat
541 acctcatctc ccctgaaact ctcaagaggc tcaacggaga ggcgtttcct tacaccgctt
601 tcgacaacaa ctgctatgcc ttttgctgct gggtgttaga cctcaatgat tcatggctta
661 gcaggagaat ggtgcaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa
721 aacccctgcc caccatggat gactccaaaa taaagaaggt tgcaaatata ttcctatgtt
781 cattgtccac attattcacc agacccataa aagacctcat aggaaaaatt aaaccattaa
841 acatattgaa catcctggca acgtgtgact ggacgtttgc cggaatagtg gagtctctga
901 tattgcttgc tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg
961 ctcccttact cggggactac gagttgcaag ggccagaaga cctcgccgtt gaactcgtac
1021 ctgtggtaat gggagggatt ggcttggtgt tgggattcac caaagagaaa attggcaaaa
1081 tgctgtcctc agcagcatca acactcaggg cttgtaaaga tcttggtgcc tatggcttag
1141 agatactcaa attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagttag
1201 ccatggtaag ggccatagag gatgccgtac tagatcttga ggcaatagaa aataaccaca
1261 tgacaaccct gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg
1321 aggaggagaa agccagaagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa
1381 tcaacgccct gctggctcga atagcagcgg ccaggtcatt agtccacagg gccaaggaag
1441 aactgtctag caggataagg ccagtagttg ttatgatatc tggcaaacca ggaataggca
1501 aaactcatct ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaga
1561 gagtcggact cataccaaga aacggtgtgg atcattggga tgcatacaaa ggtgagagag
1621 tcgtgttgtg ggacgactat ggcatgagta accccattca tgatgctctc cgcatacaag
1681 aattggctga tacgtgcccc cttactttaa attgtgacag aattgaaaat aagggaaaag
1741 tttttgacag tgaagtcata ataattacaa caaaccttgc caacccagcc ccacttgatt
1801 atgtcaactt tgaggcctgt tccaggagaa ttgatttcct ggtgtacgct gaggcaccag
1861 aagtagaaaa ggcaaaacgg gattttcctg gtcagccaga tatgtggaag gacgccttca
1921 agccggactt ttcacacatc aagctacagc ttgcacctca gggcggcttt gacaagaatg
1981 gcaacacccc acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc
2041 gtgcatcagg cctactgcat gagaggatgg atgaatttga actccaaggt cccacaatca
2101 ccactttcaa tttcgaccgg aacagaatca cagcattcag acaattggct gcagaaaaca
2161 agtatggact ggtggacacc atgaaagttg gcaatcaact aaaaggagtg aaaaccatgg
2221 aagaactcaa acaagcaatc aggaatgtga ccatcaagag gtgccggatc atctacggtg
2281 gctccacgta tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga
2341 acgcctctat acagaccaac aacgagttgg tcggggccct gcaccatctt aaacatgccc
2401 gaatcaggta ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcatg caaatcgccg
2461 gcgctgcgtt tgtcaccacg cgtattgcac gccgcatgaa catacaagaa ctctggtcga
2521 agccacaatt agatcaaaat gaatcagagt ccaaggaaga ggcccccaag ccagaagatg
2581 acgagttcat catatcttct aaggatatca aggaggaagg aaagaagggc aaaaacaaaa
2641 ctggccgtgg caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg
2701 acgagtacaa gaggataaga gaagagagaa atgggaagta ctctatagag gagtaccttc
2761 aagacagaga caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct
2821 gtgaagagga ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagaa
2881 aggaagagag ggccacacta gggctggtga caggttcaga aatcagaaga agaaaccctg
2941 atgacttcaa acccaaaggg aagctgtggg ccgatgacaa cagaagtgtt gactacaatg
3001 agaaactgga ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggttctg
3061 gttggggctt ctgggtatca ccaagcctgt tcataacatc aactcatgtg atccctgtag
3121 gcataacaga agcatttgga gtccccatca aacaaattca gatccacaaa tcaggtgaat
3181 tttgtcgatt cagattccca aaaccaatca gaccagatgt gacaggaatg atcttggaag
3241 aaggtgcgcc tgaaggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca
3301 tgcctcttgc agccagaatg ggaacacacg caaccatgaa gattcaaggc cgcatggttg
3361 gcggacagat gggtatgttg ctcactggat caaatgccaa aggaatggat ttgggaacaa
3421 cccctggtga ctgtggctgc ccttacatct ataaaagagg caatgactat gtagtcattg
3481 gggtgcacac tgcagcagcc cgtggtggaa acaccgtcat ctgtgccaca cagggaagtg
3541 agggtgaggc aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc
3601 taggccctgg gggcgcacca aaattgagca ccaaaaccaa attttggagg tcatcgaaca
3661 cgccccttcc accagggaca tatgaacctg cctacctcgg tggccgtgac ccacgtgtta
3721 ggggtgggcc ctccttacag caggtaatga gagaccagtt gaagccattc actgaaccca
3781 ggggcaagcc tccaagacca agtgttttgg aagcagccaa acaaactatt atcaatgtcc
3841 ttgaacaaac cctggatcct ccacaaaaat ggacatacgc gcaggcgtgt gcctcacttg
3901 acaaaaccac ctccagcggg catccccatc acgtccgaaa gaatgaattc tggagtggtg
3961 agaccttcac tggtaaattg gctgaccaag catcaaaagc aaacctaatg tttgaggaag
4021 ggaaacacat gacaccagtg tacacagcag cactcaagga tgagctagtt aagactgaga
4081 aaatctatgg aaaaatcaag aagagactgc tctggggctc tgacctgtcc accatgatcc
4141 ggtgcgctag gtcatttggt gggctcatgg acgagatgaa ggcacactgc atatcactcc
4201 cagtacgagt tggcatgaat atgaatgaag atggtccaat aatatttgag aaacattcca
4261 gatacaaata tcactatgat gcagattact ctcgttggga ttcaacacaa cagagggcag
4321 tattagcagc agccctggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa
4381 tagtcgctga ggatctactg gcccctagtg tagtagatgt aggagacttt aaaatcacaa
4441 taaatgaggg gctaccatct ggcgtgccat gcacttctca atggaactcc atcgcacact
4501 ggctgctaac tctctgtgcc ttgtctgaag tcaccaaact atcccctgac attatacaag
4561 caaattccat gttctcattt tacggtgatg acgagattgt cagcaccgac ataaagttgg
4621 accctgaaca gttgaccgcc aagttgaaag agtacggcct gaaaccaacc cgcccagaca
4681 agaccgaggg acccctgatc atcagtgaag atttggacgg acttactttc ctccggagga
4741 cggtgactcg tgacccagct ggctggtttg gaaaactgga ccaaagttca attttgaggc
4801 agatgtattg gactagagga ccaaatcatg aagaccccaa cgagacaatg ataccccatt
4861 ctcaaagacc catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt
4921 tctacagtag aatcagtaaa ttggttataa ctgaacttaa agaaggtggg atggactttt
4981 acgtgccaag gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg
5041 agggcgatcg caatctggct cccaattttg tgaatgaaga tggcgtcgag tgacgccaac
5101 ccatctgatg ggtccgcagc caacctcgta ccagaggtca acaatgaggt tatggctttg
5161 gagcccgttg ttggtgccgc tattgcggca cctgtagcgg gccaacaaaa tgtaattgac
5221 ccctggatta gaaataattt tgtacaagcc cctggtgggg agtttacagt gtcccccaga
5281 aatgctccag gtgaaatact atggagcgcg cccctaggcc ctgacctaaa tccctaccta
5341 tcccatctgg ccaggatgta caatggttat gcaggtggct ttgaagtgca ggtaattctc
5401 gcggggaacg cgttcaccgc cgggaagatt atatttgcag cagtcccacc aaattttcca
5461 actgaaggct taagtcctag ccaggtcact atgttccccc atataatagt agatgttaga
5521 caattggaac ctgtgctgat ccccttgccc gatgttagga ataatttcta tcattacaat
5581 cagtcaaatg actccactat taagttgata gcaatgttgt acacaccact tagggctaat
5641 aatgctgggg atgatgtttt cacagtctcg tgtcgagttc tcacgaggcc atcccccgat
5701 tttgatttca tattcttagt accacccaca gttgagtcaa gaaccaaacc attctccgtc
5761 ccagttttaa ctgttgagga gatgaccaac tcaagattcc ccatcccttt ggaaaagttg
5821 ttcacaggcc ccagcagtgc atttgttgtt caaccacaaa acggcagatg cacaactgat
5881 ggcgtgctcc taggcaccac ccaactttct cctgtcaaca tctgcacctt cagaggggat
5941 gtcacccaca tcacaggcag tcacaactac actatgaatt tggcttctca aaattggaac
6001 aactacgacc cgacagaaga aatcccagct cccctaggaa ctccagattt tgtggggaag
6061 attcaaggca tgctcaccca aaccacaagg acagatggtt caacacgcgg ccacaaagct
6121 acagtgtaca ctgggagcgc cgactttgct ccaaaactgg gtagagttca atttgaaact
6181 gacacaaacc atgattttga agccaatcaa aacacaaagt tcaccccagt cggtgtcatc
6241 caagatggta gcaccaccca ccgaaacgaa ccccaacagt gggtgctccc aagttactca
6301 ggcagaaata ctcacaatgt acatttagcc cccgctgtag cccccacctt tccgggtgag
6361 caacttctct tctttagatc taccatgccc ggatgcagcg ggtaccccaa catggatttg
6421 gactgtctgc tcccccagga atgggtgcag tacttttacc aagaggcagc cccagcacaa
6481 tctgatgtgg ctctgctaag atttgtgaat ccagacacag gtagggtttt gtttgagtgc
6541 aagcttcaca aatcaggtta tgttacagtg gctcacactg gccaacatga tttggttatc
6601 ccccccaatg gttactttag gtttgattcc tgggtcaacc agttctacac gcttgccccc
6661 atgggaaatg gaacggggcg tagacgtgca gtataatggc tggagctttc tttgctggat
6721 tggcatctga tgtccttggc tctggacttg gttcccttat caatgctggg gctggggcca
6781 tcaaccaaaa agttgagttt gaaaataaca gaaaattgca acaggcatcc ttccaattta
6841 gcagcaattt gcaacaggct tcctttcaac atgataaaga gatgctccaa gcacaaattg
6901 aggccaccaa aaagctacaa caggaaatga tgagagttaa gcaggcaatg ctcctagagg
6961 gtgggttctc tgagacagat gcggcccgcg gggcaattaa cgcccccatg acaaaggctt
7021 tggactggag cgggacaagg tactgggctc cagatgctag aattacaaca tacagtgcag
7081 gccacttttc cacccctcaa ccatcggggg cactgccagg aagagctaat cttagggatg
7141 ctgcccctgc tcggggaccc tccaccagac cttctaactc ttctactgcc acctctgtgt
7201 attcaaatca aactatttca acgagacttg gttctacagc tggttctgga accagtgtct
7261 cgagcctccc gtcaactgca aggactagga gctgggttga ggatcaaaat aggaatttgt
7321 ctcctttcat gaggggggcc cacaacatat catttgtcac cccaccatct agcagatcct
7381 ctagccaagg cacagtctca accgtgccta aagaaatttt ggactcctgg actggcgctt
7441 tcaacacgcg caggcagcct ctcttcgctc acattcgtaa gcgaggggag tcacgggtgt
7501 aatgtgaaaa gacaaaactg attattttct ttttcttttc t
//