Typing tool
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Typing tool
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Complete norovirus genomes
| LC790068 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5095
ORF2: 5076..6698
ORF3: 6698..7504
LOCUS LC790068 7539 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221975 RNA, nearly complete genome.
ACCESSION LC790068
VERSION LC790068.1
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JOURNAL Unpublished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 7539)
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..7539
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221975"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-03"
gene <1..5095
/gene="POL"
CDS <1..5095
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21218.1"
/translation="MASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQ
PAPRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPG
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MARVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGSQLKGVKTM
EELKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLK
HARIRYYVKCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAP
KSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTG
SEIRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPVGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGYPHHVRKNEFWSG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEY
GLKPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5076..6698
/gene="VP1"
CDS 5076..6698
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21219.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6698..7504
/gene="VP2"
CDS 6698..7504
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21220.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAVLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRASLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSIAGSGTSVSSLPSTARTRSWVEDQNRNMSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gatggcgtct aacgacgcta ccgttgccgt tgcttgcaac aacaacaacg acaaggaaaa
61 atcttcaggt gaaggcttat tcacaaatat gtcttccacc ttaaagaaag ccctcggggc
121 caggcccaaa cagcctgccc cgagagacga accacaaaag cccccaagac caccaactcc
181 cgagttgatc aagaggatac ccccccctcc acctaatggc gaggaagaag gagaaccagt
241 catcaggtat gaggttaaga gtggggtctc tggcctgccc gagctcacaa cagtccccca
301 accgggcgtg gccaacacag catttagtgt tccaccactg agcttgagag aaaacaggga
361 ggccaaggag ccgttaacag gggcaatact agagatgtgg gacggagaga tataccacta
421 tggcctgtac gtggagaaag gcttagtgtt gggtgtgcac aaaccacctg cagccataag
481 catggcgaga gtggagctaa cgccgctgtc attgtattgg cgtgtggtgt acactcccca
541 atacctcatc tcccctgaaa ctctcaagag gctcaacgga gaggcgtttc cttacaccgc
601 tttcgacaac aactgctatg ccttttgctg ctgggtgtta gacctcaatg attcatggct
661 tagcaggaga atggtgcaaa gaacaacggg cttcttcaga ccttaccaag agtggaacag
721 aaaacccctg cccaccatgg atgactccaa aataaagaag gtagcaaata tattcctatg
781 ttcattgtcc acattattca ccagacccat aaaagacctc ataggaaaaa ttaaaccatt
841 aaacatattg aacatcctgg caacgtgtga ctggacgttt gccggaatag tggagtctct
901 gatattgctt gctgaactct tcggagtttt ctggacaccc ccagatgtgt ctgctatgat
961 cgctccctta ctcggggact acgagttgca agggccagaa gacctcgccg ttgaactcgt
1021 acctgtggta atgggaggga ttggcttggt gttgggattc accaaagaga aaattggcaa
1081 aatgctgtcc tcagcagcat caacactcag ggcctgtaaa gatcttggtg cctatggctt
1141 agagatactc aaattggtca tgaagtggtt cttcccaaag aaagaggagg ccaatgagtt
1201 agccatggta agggccatag aggatgccgt actagatctt gaggcaatag aaaataacca
1261 catgacaacc ctgttgaaag acaaagacag cttagcaaca tacatgaaaa cactggacat
1321 ggaggaggag aaagccagaa ggttgtccac aaaatctgca tcccctgaca tagttgggac
1381 aatcaacgcc ctgctggctc gaatagcagc ggccaggtca ttagtccaca gggccaagga
1441 agaactgtct agcaggataa ggccagtagt tgttatgata tctggcaaac caggaatagg
1501 caaaactcat ctggccaggg aggtagcaag aaaggtggca tccactctca caggggatca
1561 gagagtcgga ctcataccaa gaaacggtgt ggatcattgg gatgcataca aaggtgagag
1621 agtcgtgttg tgggacgact atggcatgag taaccccatt catgatgctc tccgcataca
1681 agaattggct gatacgtgtc cccttacctt aaattgtgac agaattgaaa ataagggaaa
1741 agtttttgac agtgaagtca taataattac aacaaacctt gccaacccag ccccacttga
1801 ttatgtcaac tttgaggcct gttccaggag aattgatttc ctggtgtacg ctgaggcacc
1861 agaagtagaa aaggcaaaac gggattttcc tggtcagcca gatatgtgga aggacgcctt
1921 caagccggac ttttcacaca tcaagctaca gcttgcacct cagggcggct ttgacaagaa
1981 tggcaacacc ccacatggga aaggagtgat gaagaccctc actaccggtt ctctgattgc
2041 ccgtgcatca ggcctactgc atgagaggat ggatgaattt gaactccaag gtcccacaat
2101 caccactttc aatttcgacc ggaacagaat cacagcattc agacaattgg ctgcagaaaa
2161 caagtatgga ctggtggaca ccatgaaagt tggcagtcaa ctaaaaggag tgaaaaccat
2221 ggaagaactc aaacaagcaa tcaggaatgt gaccatcaag aggtgccgga tcatctacgg
2281 tggctccacg tatgaccttg aatctgatgg caagggcaaa gttttggtgg aaaaggtcaa
2341 gaacgcctct atacagacca acaacgagtt ggtcggggcc ctgcaccatc ttaaacatgc
2401 ccgaatcagg tactatgtca aatgtgtgca agaagcagtc tattccatca tgcaaatcgc
2461 cggcgctgcg tttgtcacca cgcgtattgc acgccgcatg aacatacaag aactctggtc
2521 gaagccacaa ttagatcaaa atgaatctga gtccaaggaa gaggccccca agtcagaaga
2581 tgacgagttc atcatatctt ctaaggatat caaggaggaa ggaaagaagg gcaaaaacaa
2641 aactggccgt ggcaagaaac acactgcatt ctccagcaag ggcttgagcg atgaggagta
2701 tgacgagtac aagaggataa gagaagagag aaatgggaag tactctatag aggagtacct
2761 tcaagacaga gacaggtact atgaggagct cgccattgcc aaggccacgg aagaagactt
2821 ttgtgaagag gaggagatca aaatccgtca gagaattttc cgtcccacca ggaaacaaag
2881 aaaggaagag agggccacac tagggctggt gacaggttca gagatcagaa gaagaaaccc
2941 tgatgacttc aaacccaaag ggaagctgtg ggccgatgac aacagaagtg ttgactacaa
3001 tgagaaactg gactttgagg cccccccaag catatggtct aggattgtga gctttggttc
3061 tggttggggc ttctgggtat caccaagcct gttcataaca tcaactcatg tgatccctgt
3121 aggcataaca gaagcatttg gagtctccat caaacaaatt cagatccata aatcaggtga
3181 attttgtcga ttcagattcc caaaaccaat tagaccagat gtgacaggaa tgatcttgga
3241 agaaggtgcg cctgaaggca ccgtggcaac tgtgctcatc aaacgcccca ccggagagct
3301 catgcctctt gcagccagaa tgggaacaca cgcaaccatg aagattcaag gccgcatggt
3361 tggcggacag atgggtatgt tgctcactgg atcaaatgcc aaaggaatgg atttgggaac
3421 aacccctggt gactgtggct gcccttacat ctataaaaga ggcaatgact atgtagtcat
3481 tggggtgcac actgcagcag cccgtggtgg aaacaccgtc atctgtgcca cacagggaag
3541 tgagggtgag gcaactcttg agggtggaga tgacaaagga acatactgtg gggcacccat
3601 tctaggccct gggggcgcac caaaattgag caccaaaacc aaattttgga ggtcatcgaa
3661 cacgcccctt ccaccaggga catatgaacc tgcctacctc ggtggccgtg acccacgtgt
3721 taggggtggg ccctccttac agcaggtaat gagagaccag ttgaagccat tcactgaacc
3781 caggggcaag cctccaagac caagtgtttt ggaagcagcc aaacaaacta ttatcaatgt
3841 ccttgaacaa accctggatc ctccacaaaa atggacatac gcgcaggcgt gtgcctcact
3901 tgacaaaacc acctccagcg ggtatcccca tcacgtccga aagaatgaat tctggagtgg
3961 tgagaccttc actggtaaat tggctgacca agcatcaaaa gcaaacctaa tgtttgagga
4021 agggaaacac atgacaccag tgtacacagc agcactcaag gatgagctag ttaagactga
4081 gaaaatctat ggaaaaatca agaagagact gctctggggc tctgacctgt ccaccatgat
4141 ccggtgcgct aggtcatttg gtgggctcat ggacgagatg aaggcacact gcatatcact
4201 cccagtacga gttggcatga atatgaatga agatggtcca ataatatttg agaaacattc
4261 cagatacaaa tatcactatg atgcagatta ctctcgttgg gattcaacac aacagagggc
4321 agtattagca gcagccttgg aaatcatggt cagattctct gcagaaccac aattggcaca
4381 aatagtcgct gaggatctac tggcccctag tgtagtggat gtaggagact ttaaaatcac
4441 aataaatgag gggctaccat ctggcgtgcc atgcacttct caatggaact ccatcgcaca
4501 ctggctgcta actctctgtg ccttgtctga agtcaccaaa ctatcccctg acattataca
4561 agcaaattcc atgttctcat tttacggtga tgacgagatt gtcagcaccg acataaagtt
4621 ggaccctgaa cagttgaccg ccaaattgaa ggagtacggc ctgaaaccaa cccgcccaga
4681 caagaccgag ggacccctga tcatcagtga agatttggac ggacttactt tcctccgaag
4741 gacggtgact cgtgacccag ctggctggtt tggaaaactg gaccaaagtt caattttgag
4801 gcagatgtat tggactagag gaccaaatca tgaagacccc aacgagacaa tgatacccca
4861 ttctcaaaga cccatacagc tcatggcact gcttggtgaa gcctctcttc acggaccctc
4921 tttctacagt agaatcagta aattggttat aactgaactt aaagaaggtg ggatggactt
4981 ttacgtgcca aggcaggaac ccatgttcag gtggatgagg ttttctgact tgagcacgtg
5041 ggagggcgat cgcaatctgg ctcccaattt tgtgaatgaa gatggcgtcg agtgacgcca
5101 acccatctga tgggtccgca gccaacctcg taccagaggt caacaatgag gttatggctt
5161 tggagcccgt tgttggtgcc gctattgcgg cacctgtagc gggccaacaa aatgtaattg
5221 acccctggat tagaaataat tttgtacaag cccctggtgg ggagtttaca gtgtccccca
5281 gaaatgctcc aggtgaaata ctatggagcg cgcccctagg ccctgaccta aatccctacc
5341 tatcccatct ggccaggatg tacaatggtt atgcaggtgg ctttgaagtg caggtaattc
5401 tcgcggggaa cgcgttcacc gccgggaaga ttatatttgc agcagtccca ccaaattttc
5461 caactgaagg cttaagtcct agccaggtca ctatgttccc ccatataata gtagatgtta
5521 gacaattgga acctgtgctg atccccttgc ccgatgttag gaataatttc tatcattaca
5581 atcagtcaaa tgactccact attaagttga tagcaatgtt gtacacacca cttagggcta
5641 ataatgctgg ggatgatgtt ttcacagtct cgtgtcgagt tctcacgagg ccatcccccg
5701 attttgattt catattctta gtaccaccca cagttgagtc aagaaccaaa ccattctccg
5761 tcccagtttt aactgttgag gagatgacca actcaagatt ccccatccct ttggaaaagt
5821 tgttcacagg ccccagcagt gcatttgttg ttcaaccaca aaacggcaga tgcacaactg
5881 atggcgtgct cctaggcacc acccaacttt ctcctgtcaa catctgcacc ttcagagggg
5941 atgtcaccca catcacaggc agtcacaact acactatgaa tttggcttct caaaattgga
6001 acaactacga cccgacagaa gaaatcccag ctcccctagg aactccagat tttgtgggga
6061 agattcaagg catgctcacc caaaccacaa ggacagatgg ttcaacacgc ggccacaaag
6121 ctacagtgta cactgggagc gccgactttg ctccaaaact gggtagagtt caatttgaaa
6181 ctgacacaaa ccatgatttt gaagccaatc aaaacacaaa gttcacccca gtcggtgtca
6241 tccaagatgg tagcaccacc caccgaaacg aaccccaaca gtgggtgctc ccaagttact
6301 caggcagaaa tactcacaat gtacatttag cccccgctgt agcccccacc tttccgggtg
6361 agcaacttct cttctttaga tctaccatgc ccggatgcag cgggtacccc aacatggatt
6421 tggactgtct gctcccccag gaatgggtgc agtactttta ccaagaggca gccccagcac
6481 aatctgatgt ggctctgcta agatttgtga atccagacac aggtagggtt ttgtttgagt
6541 gcaagcttca caaatcaggt tatgttacag tggctcacac tggccaacat gatttggtta
6601 tcccccccaa tggttacttt aggtttgatt cctgggtcaa ccagttctac acgcttgccc
6661 ccatgggaaa tggaacgggg cgtagacgtg cagtataatg gctggagctt tctttgctgg
6721 actggcatct gatgtccttg gctctggact tggttccctt atcaatgctg gggctggggc
6781 catcaaccaa aaagttgagt ttgaaaataa cagaaaattg caacaggcat ccttccaatt
6841 tagcagcaat ttgcaacagg cttcctttca acatgataaa gagatgctcc aagcacaaat
6901 tgaggccacc aaaaagttac aacaggaaat gatgagagtt aagcaggcag tgctcctaga
6961 gggtgggttc tctgagacag atgcggcccg cggggcagtt aacgccccca tgacaaaggc
7021 tttggactgg agcgggacaa ggtactgggc tccagatgct agaattacaa catacagtgc
7081 aggccacttt tccacccctc aaccatcggg ggcactgcca gggagagcta gtcttaggga
7141 tgctgcccct gctcggggac cctccaccag accttctaac tcttctactg ccacctctgt
7201 gtattcaaat caaactattt caacgagact tggttctata gctggttctg gaaccagtgt
7261 ctcgagcctc ccgtcaactg caaggactag gagctgggtt gaggatcaaa ataggaatat
7321 gtctcctttc atgagggggg cccacaacat atcattcgtc accccaccat ctagcagatc
7381 ctctagccaa ggcacagtct caaccgtgcc taaagaaatt ttggactcct ggactggcgc
7441 tttcaacacg cgcaggcagc ctctcttcgc tcacattcgt aagcgagggg agtcacgggt
7501 gtaatgtgaa aagacaaaac tgattatttt ctttttctt
//