Typing tool
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Typing tool
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Complete norovirus genomes
| LC790063 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..4705
ORF2: 4686..6308
ORF3: 6308..7114
LOCUS LC790063 7128 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221336 RNA, nearly complete genome.
ACCESSION LC790063
VERSION LC790063.1
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JOURNAL Unpublished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 7128)
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..7128
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221336"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-01"
gene <1..4705
/gene="POL"
CDS <1..4705
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21203.1"
/translation="EMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVELTPLSLYWR
VVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMVQRTTGFF
RPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILATCD
WTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIG
LVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRAI
EDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTINAL
LARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQRV
GLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNCDRIENKGK
VFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKD
AFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFELQ
GPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNVTIKR
CRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKHARIRYYVKCVQEA
VYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPKSEDDEFIISSKDI
KEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYE
ELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRRRNPDDFKPK
GKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPVGITE
AFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGELMP
LAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYVVI
GVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFWRS
SNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAKQT
IINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGETFTGKLADQASKA
NLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLMDE
MKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEIMV
RFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLCAL
SEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEGPL
IISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQRP
IQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTWEG
DRNLAPNFVNEDGVE"
gene 4686..6308
/gene="VP1"
CDS 4686..6308
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21204.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6308..7114
/gene="VP2"
CDS 6308..7114
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21205.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWAGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 agagatgtgg gacggagaga tataccacta tggcctgtac gtggagaaag gcttagtgtt
61 gggtgtgcac aaaccacctg cagccataag catggcgaga gtggagctaa cgccgctgtc
121 attgtattgg cgtgtggtgt acactcccca atacctcatc tcccctgaaa ctctcaagag
181 gctcaacgga gaggcgtttc cttacaccgc tttcgacaac aactgctatg ccttttgctg
241 ctgggtgtta gacctcaatg attcatggct tagcaggaga atggtgcaaa gaacaacggg
301 cttcttcaga ccttaccaag agtggaacag aaaacccctg cccaccatgg atgactccaa
361 aataaagaag gtagcaaata tattcctatg ttcattgtcc acattattca ccagacccat
421 aaaagacctc ataggaaaaa ttaaaccatt aaacatattg aacatcctgg caacgtgtga
481 ctggacgttt gccggaatag tggagtctct gatattgctt gctgaactct tcggagtttt
541 ctggacaccc ccagatgtgt ctgctatgat cgctccctta ctcggggact acgagttgca
601 agggccagaa gacctcgccg ttgaactcgt acctgtggta atgggaggga ttggcttggt
661 gttgggattc accaaagaga aaattggcaa aatgctgtcc tcagcagcat caacactcag
721 ggcttgtaaa gatcttggtg cctatggctt agagatactc aaattggtca tgaagtggtt
781 cttcccaaag aaagaggagg ccaatgagtt agccatggta agggccatag aggatgccgt
841 actagatctt gaggcaatag aaaataacca catgacaacc ctgttgaaag acaaagacag
901 cttagcaaca tacatgaaaa cactggacat ggaggaggag aaagccagaa ggttgtccac
961 aaaatctgca tcccctgaca tagttgggac aatcaacgcc ctgctggctc gaatagcagc
1021 ggccaggtca ttagtccaca gggccaagga agaactgtct agcaggataa ggccagtagt
1081 tgttatgata tctggcaaac caggaatagg caaaactcat ctggccaggg aggtggcaag
1141 aaaggtggca tccactctca caggggatca gagagtcgga ctcataccaa gaaacggtgt
1201 ggatcattgg gatgcataca aaggtgagag agtcgtgttg tgggacgact atggcatgag
1261 taaccccatt catgatgctc tccgcataca agaattggct gatacgtgcc cccttacttt
1321 aaattgtgac agaattgaaa ataagggaaa agtttttgac agtgaagtca taataattac
1381 aacaaacctt gccaacccag ccccacttga ttatgtcaac tttgaggcct gttccaggag
1441 aattgatttc ctggtgtacg ctgaggcacc agaagtagaa aaggcaaaac gggattttcc
1501 tggccagcca gatatgtgga aggacgcctt caagccggac ttttcacaca tcaagctaca
1561 gcttgcacct cagggcggct ttgacaagaa tggcaacacc ccacatggga aaggagtgat
1621 gaagaccctc actaccggtt ctctgattgc ccgtgcatca ggcctactgc atgagaggat
1681 ggatgaattt gaactccaag gtcccacaat caccactttc aatttcgacc ggaacagaat
1741 cacagcattc agacaattgg ctgcagaaaa caagtatgga ctggtggaca ccatgaaagt
1801 tggcaatcaa ctaaaaggag tgaaaaccat ggaagaactc aaacaagcaa tcaggaatgt
1861 gaccatcaag aggtgccgga tcatctacgg tggctccacg tatgaccttg aatctgatgg
1921 caagggcaaa gttttggtgg aaaaggtcaa gaacgcctct atacagacca acaacgagtt
1981 ggtcggggcc ctgcaccatc ttaaacatgc ccgaatcagg tactatgtca aatgtgtgca
2041 agaagcagtc tattccatca tgcaaatcgc cggcgctgcg tttgtcacca cgcgtattgc
2101 acgccgcatg aacatacaag aactctggtc gaagccacaa ttagatcaaa atgaatcaga
2161 gtccaaggaa gaggccccca agtcagaaga tgacgagttc atcatatctt ctaaggatat
2221 caaggaggaa ggaaagaagg gcaaaaacaa aactggccgt ggcaagaaac acactgcatt
2281 ctccagcaag ggcttgagcg atgaggagta tgacgagtac aagaggataa gagaagagag
2341 aaatgggaag tactctatag aggagtacct tcaagacaga gacaggtact atgaggagct
2401 cgccattgcc aaggccacgg aagaagactt ctgtgaagag gaggagatca aaatccgtca
2461 gagaattttc cgtcccacca ggaaacaaag aaaggaagag agggccacac tagggctggt
2521 gacaggttca gaaatcagaa gaagaaaccc tgatgacttc aaacccaaag ggaagctgtg
2581 ggccgatgac aacagaagtg ttgactacaa tgagaaactg gactttgagg cccccccaag
2641 catatggtct aggattgtga gctttggttc tggttggggc ttctgggtat caccaagcct
2701 gttcataaca tcaactcatg tgatccctgt aggcataaca gaagcatttg gagtccccat
2761 caaacaaatt cagatccaca aatcaggtga attttgtcga ttcagattcc caaaaccaat
2821 tagaccagat gtgacaggaa tgatcttgga agaaggtgcg cctgaaggca ccgtggcaac
2881 tgtgctcatc aaacgcccca ccggagagct catgcctctt gcagccagaa tgggaacaca
2941 cgcaaccatg aagattcaag gccgcatggt tggcggacag atgggtatgt tgctcactgg
3001 atcaaatgcc aaaggaatgg atttgggaac aacccctggt gactgtggct gcccttacat
3061 ctataaaaga ggcaatgact atgtagtcat tggggtgcac actgcagcag cccgtggtgg
3121 aaacaccgtc atctgtgcca cacagggaag tgagggtgag gcaactcttg agggtggaga
3181 tgacaaagga acatactgtg gggcacccat tctaggccct gggggcgcac caaaattgag
3241 caccaaaacc aaattttgga ggtcatcgaa tacgcccctt ccaccaggga catatgagcc
3301 tgcctacctc ggtggccgtg acccacgtgt taggggtggg ccctccttac agcaggtaat
3361 gagagaccag ttgaagccat tcactgaacc caggggcaag cctccaagac caagtgtttt
3421 ggaagcagcc aaacaaacta ttatcaatgt ccttgaacaa accctggatc ctccacaaaa
3481 atggacatac gcgcaggcgt gtgcctcact tgacaaaacc acctccagcg ggcatcccca
3541 tcacgtccga aagaatgaat tctggagtgg tgagaccttc actggtaaat tggctgacca
3601 agcatcaaaa gcaaacctaa tgtttgagga agggaaacac atgacaccag tgtacacagc
3661 agcactcaag gatgagctag ttaagactga gaaaatctat ggaaaaatca agaagagact
3721 gctctggggc tctgacctgt ccaccatgat ccggtgcgct aggtcatttg gtgggctcat
3781 ggacgagatg aaggcacact gcatatcact cccagtacga gttggcatga atatgaatga
3841 agatggtcca ataatatttg agaaacattc cagatacaaa tatcactatg atgcagatta
3901 ctctcgttgg gattcaacac aacagagggc agtattagca gcagccttgg aaatcatggt
3961 cagattctct gcagaaccac aattggcaca aatagtcgct gaggatctac tggcccctag
4021 tgtagtagat gtgggagact ttaaaatcac aataaatgag gggctaccat ctggcgtgcc
4081 atgcacttct caatggaact ccatcgcaca ctggctgcta actctctgtg ccttgtctga
4141 agtcaccaaa ctatcccctg acattataca agcaaattcc atgttctcat tttacggtga
4201 tgacgagatt gtcagcaccg acataaagtt ggaccctgaa cagttgaccg ccaagttgaa
4261 ggagtacggc ctgaaaccaa cccgcccaga caagaccgag ggacccctga tcatcagtga
4321 agatttggac ggacttactt tcctccgaag gacggtgact cgtgacccag ctggctggtt
4381 tggaaaactg gaccaaagtt caattttgag gcagatgtac tggactagag gaccaaatca
4441 tgaagacccc aacgagacaa tgatacccca ttctcaaaga cccatacagc tcatggcact
4501 gcttggtgaa gcctctcttc acggaccctc tttctacagt agaatcagta aattggttat
4561 aactgaactt aaagaaggtg ggatggactt ttacgtgcca aggcaggaac ccatgttcag
4621 gtggatgagg ttttctgact tgagcacgtg ggagggcgat cgcaatctgg ctcccaattt
4681 tgtgaatgaa gatggcgtcg agtgacgcca acccatctga tgggtccgca gccaacctcg
4741 taccagaggt caacaatgag gttatggctt tggagcccgt tgttggtgcc gctattgcgg
4801 cacctgtagc gggccaacaa aatgtaattg acccctggat tagaaataat tttgtacaag
4861 cccctggtgg ggagtttaca gtgtccccca gaaatgctcc aggtgaaata ctatggagcg
4921 cgcccctagg ccctgaccta aatccctacc tatcccatct ggccaggatg tacaatggtt
4981 atgcaggtgg ctttgaagtg caggtaattc tcgcggggaa cgcgttcacc gccgggaaga
5041 ttatatttgc agcagtccca ccaaattttc caactgaagg cttaagtcct agccaggtca
5101 ctatgttccc ccatataata gtagatgtta gacaattgga acctgtgctg atccccttgc
5161 ccgatgttag gaataatttc tatcattaca atcagtcaaa tgactccact attaagttga
5221 tagcaatgtt gtacacacca cttagggcta ataatgctgg ggatgatgtt ttcacagtct
5281 cgtgtcgagt tctcacgagg ccatcccccg attttgattt catattctta gtaccaccca
5341 cagttgagtc aagaaccaaa ccattctccg tcccagtttt aactgttgag gagatgacca
5401 actcaagatt ccccatccct ttggaaaagt tgttcacagg ccccagcagt gcatttgttg
5461 ttcaaccaca aaacggcaga tgcacaactg atggcgtgct cctaggcacc acccaacttt
5521 ctcctgtcaa catctgcacc ttcagagggg atgtcaccca catcacaggc agtcacaact
5581 acactatgaa tttggcttct caaaattgga acaactacga cccgacagaa gaaatcccag
5641 ctcccctagg aactccagat tttgtgggga agattcaagg catgctcacc caaaccacaa
5701 ggacagatgg ttcaacacgc ggccacaaag ctacagtgta cactgggagc gccgactttg
5761 ctccaaaact gggtagagtt caatttgaaa ctgacacaaa ccatgatttt gaagccaatc
5821 aaaacacaaa gttcacccca gtcggtgtca tccaagatgg tagcaccacc caccgaaacg
5881 aaccccaaca gtgggtgctc ccaagttact caggcagaaa tactcacaat gtacatttag
5941 cccccgctgt agcccccacc tttccgggtg agcaacttct cttctttaga tctaccatgc
6001 ccggatgcag cgggtacccc aacatggatt tggactgtct gctcccccag gaatgggtgc
6061 agtactttta ccaagaggca gccccagcac aatctgatgt ggctctgcta agatttgtga
6121 atccagacac aggtagggtt ttgtttgagt gcaagcttca caaatcaggc tatgttacag
6181 tggctcatac tggccaacat gatttggtta tcccccccaa tggttacttt cggtttgatt
6241 cctgggtcaa ccagttctac acgcttgccc ccatgggaaa tggaacgggg cgtagacgtg
6301 cagtataatg gctggagctt tctttgctgg attggcatct gatgtccttg gctctggact
6361 tggttccctt atcaatgctg gggctggggc catcaaccaa aaagttgagt ttgaaaataa
6421 cagaaaattg caacaggcat ccttccaatt tagcagcaat ttgcaacagg cttcctttca
6481 acatgataaa gagatgctcc aagcacaaat tgaggccacc aaaaagttac aacaggaaat
6541 gatgagagtt aagcaggcaa tgctcctaga gggtgggttc tctgagacag atgcggcccg
6601 cggggcaatt aacgccccca tgacaaaggc tttggactgg agcgggacaa ggtactgggc
6661 tccagatgct agaattacaa catacagtgc aggccacttt tccacccctc aaccatcggg
6721 ggcactgcca ggaagagcta atcttaggga tgctgcccct gctcggggac cctccaccag
6781 accttctaac tcttctactg ccacctctgt gtattcaaat caaactattt caacgagact
6841 tggttctaca gctggttctg gaaccagtgt ctcgagcctc ccgtcaactg caaggactag
6901 gagctgggtt gaggatcaaa ataggaattt gtctcctttc atgagggggg cccacaacat
6961 atcatttgtc accccaccat ctagcagatc ctctagccaa ggcacagtct caaccgtgcc
7021 taaagaaatt ttggactcct gggctggcgc tttcaacacg cgcaggcagc ctctcttcgc
7081 tcacattcgt aagcgagggg agtcacgggt gtaatgtgaa aagacaaa
//