Typing tool
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Typing tool
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Complete norovirus genomes
| LC790066 | GII.4 Sydney | |
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| GII.P16 |
ORF1: 1..5089
ORF2: 5070..6692
ORF3: 6692..7498
LOCUS LC790066 7538 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.4 Sydney 2012 GII/Hu/JP/2023/GII.4Sydney[P16]/
TKY221538 RNA, nearly complete genome.
ACCESSION LC790066
VERSION LC790066.1
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JOURNAL Unpublished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 7538)
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..7538
/organism="Norovirus GII.4 Sydney 2012"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2023/GII.4Sydney[P16]/TKY221538"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1776356"
/country="Japan"
/collection_date="2023-01"
gene <1..5089
/gene="POL"
CDS <1..5089
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BEV21212.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDEPQKPPRPPTPELIKRIPPPPPNGEEEGEPVIRYEVKSGVSGLPELTTVPQPGVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
RVELTPLSLYWRVVYTPQYLISPETLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKAANIFLCSLSTLFTRPIKDLIGKIK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE
LKQAIRNVTIKRCRIIYGGSTYDLESDGKGKVLVEKVKNASIQTNNELVGALHHLKHA
RIRYYVKCVQEAVYSIMQIAGAAFVTTRIARRMNIQELWSKPQLDQNESESKEEAPKP
EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRRRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPVGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVRGGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWSGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMV
RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGL
KPTRPDKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSRISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5070..6692
/gene="VP1"
CDS 5070..6692
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21213.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHITGSHNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGML
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNTHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAV"
gene 6692..7498
/gene="VP2"
CDS 6692..7498
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21214.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMRVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYSAGHFSTPQPSGALPGRANLRDAAPARGPSTRPS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 gtctaacgac gctaccgttg ccgttgcttg caacaacaac aacgacaagg aaaaatcttc
61 aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg gggctaggcc
121 caaacagcct gccccgagag acgaaccaca aaagccccca agaccaccaa ctcccgagtt
181 gatcaagagg ataccccccc ctccacctaa tggcgaggaa gaaggagaac cagtcattag
241 gtatgaggtt aagagtgggg tctctggcct gcccgagctc acaacagtcc cccaaccggg
301 cgtggccaac acagcattta gtgttccacc actgagcttg agagaaaaca gggaggccaa
361 ggagccgtta acaggggcaa tactagagat gtgggacgga gagatatacc actatggcct
421 gtacgtggag aaaggcttag tgttgggtgt gcacaaacca cctgcagcca taagcatggc
481 gagagtggag ctaacgccgc tgtcattgta ttggcgtgtg gtgtacactc cccaatacct
541 catctcccct gaaactctca agaggctcaa cggagaggcg tttccttaca ccgctttcga
601 caacaactgc tatgcctttt gctgctgggt gttagacctc aatgattcat ggcttagcag
661 gagaatggtg caaagaacaa cgggcttctt cagaccttac caagagtgga acagaaaacc
721 cctgcccacc atggatgact ccaaaataaa gaaggcagca aatatattcc tatgttcatt
781 gtccacatta ttcaccagac ccataaaaga cctcatagga aaaattaaac cattaaacat
841 attgaacatc ctggcaacgt gtgactggac gtttgccgga atagtggagt ctctgatatt
901 gcttgctgaa ctcttcggag ttttctggac acccccagat gtgtctgcta tgatcgctcc
961 cttactcggg gactacgagt tgcaagggcc agaagacctc gccgttgaac tcgtacctgt
1021 ggtaatggga gggattggct tggtgttggg attcaccaaa gagaaaattg gcaaaatgct
1081 gtcctcagca gcatcaacac tcagggcttg taaagatctt ggtgcctatg gcttagagat
1141 actcaaattg gtcatgaagt ggttcttccc aaagaaagag gaggccaatg agttagccat
1201 ggtaagggcc atagaggatg ccgtactaga tcttgaggca atagaaaata accacatgac
1261 aaccctgttg aaagacaaag acagcttagc aacatacatg aaaacactgg acatggagga
1321 ggagaaagcc agaaggttgt ccacaaaatc tgcatcccct gacatagttg ggacaatcaa
1381 cgccctgctg gctcgaatag cagcggccag gtcattagtc cacagggcca aggaagaact
1441 gtctagcagg ataaggccag tagttgttat gatatctggc aaaccaggaa taggcaaaac
1501 tcatctggcc agggaggtgg caagaaaggt ggcatccact ctcacagggg atcagagagt
1561 cggactcata ccaagaaacg gtgtggatca ttgggatgca tacaaaggtg agagagtcgt
1621 gttgtgggac gactatggca tgagtaaccc cattcatgat gctctccgca tacaagaatt
1681 ggctgatacg tgccccctta ctttaaattg tgacagaatt gaaaataagg gaaaagtttt
1741 tgacagtgaa gtcataataa ttacaacaaa ccttgccaac ccagccccac ttgattatgt
1801 caactttgag gcctgttcca ggagaattga tttcctggtg tacgctgagg caccagaagt
1861 agaaaaggca aaacgggatt ttcctggtca gccagatatg tggaaggacg ccttcaagcc
1921 ggacttttca cacatcaagc tacagcttgc acctcagggc ggctttgaca agaatggcaa
1981 caccccacat gggaaaggag tgatgaagac cctcactacc ggttctctga ttgcccgtgc
2041 atcaggccta ctgcatgaga ggatggatga gtttgaactc caaggtccca caatcaccac
2101 tttcaatttc gaccggaaca gaattacagc attcagacaa ttggctgcag aaaacaagta
2161 tggactggtg gacaccatga aagttggcaa tcaactaaaa ggagtgaaaa ccatggaaga
2221 actcaaacaa gcaatcagga atgtgaccat caagaggtgc cggatcatct acggtggctc
2281 cacgtatgac cttgaatctg atggcaaggg caaagttttg gtggaaaagg tcaagaacgc
2341 ctctatacag accaacaacg agttggtcgg ggccctgcac catcttaaac atgcccgaat
2401 caggtactat gtcaaatgtg tgcaagaagc agtctattcc atcatgcaaa tcgccggcgc
2461 tgcgtttgtc accacgcgta ttgcacgccg catgaacata caagaactct ggtcgaagcc
2521 acaattagat caaaatgaat cagagtccaa ggaagaggcc cccaagccag aagatgacga
2581 gttcatcata tcttctaagg atatcaagga ggaaggaaag aagggcaaaa acaaaactgg
2641 ccgtggcaag aaacacactg cattctccag caagggcttg agcgatgagg agtatgacga
2701 gtataagagg ataagagaag agagaaatgg gaagtactct atagaggagt accttcaaga
2761 cagagacagg tactatgagg agctcgccat tgccaaggcc acggaagaag acttctgtga
2821 agaggaggag attaaaatcc gtcagagaat tttccgtccc accaggaaac aaagaaagga
2881 agagagggcc acactagggc tggtgacagg ttcagaaatc agaagaagaa accctgatga
2941 cttcaaaccc aaagggaagc tgtgggccga tgacaacaga agtgttgact acaatgagaa
3001 actggacttt gaggcccccc caagcatatg gtctaggatt gtgagctttg gttctggttg
3061 gggcttctgg gtatcaccaa gcctgttcat aacatcaact catgtgatcc ctgtaggcat
3121 aacagaagca tttggagtcc ccatcaaaca aattcagatc cacaaatcag gtgaattttg
3181 tcgattcaga ttcccaaaac caatcagacc agatgtgaca ggaatgatct tggaagaagg
3241 tgcgcctgaa ggcaccgtgg caactgtgct catcaaacgc cccaccggag agctcatgcc
3301 tcttgcagcc agaatgggaa cacacgcaac catgaagatt cagggccgca tggttggcgg
3361 acagatgggt atgttgctca ctggatcaaa tgccaaagga atggatttgg gaacaacccc
3421 tggtgactgt ggctgccctt acatctataa aagaggcaat gactatgtag tcattggggt
3481 gcacactgca gcagcccgtg gtggaaacac cgtcatctgt gccacacagg gaagtgaggg
3541 tgaggcaact cttgagggtg gagatgacaa aggaacatac tgtggggcac ccattctagg
3601 ccctgggggc gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc
3661 ccttccacca gggacatatg aacctgccta cctcggtggc cgtgacccac gtgttagggg
3721 tgggccctcc ttacagcagg taatgagaga ccagttgaag ccattcactg aacccagggg
3781 caagcctcca agaccaagtg ttttggaagc agccaaacaa actattatca atgtccttga
3841 acaaaccctg gatcctccac aaaaatggac atacgcgcag gcgtgtgcct cacttgacaa
3901 aaccacctcc agcgggcatc cccatcacgt ccgaaagaat gaattctgga gtggtgagac
3961 cttcactggt aaattggctg accaagcatc aaaagcaaac ctaatgtttg aggaagggaa
4021 acacatgaca ccagtgtaca cagcagcact caaggatgag ctagttaaga ctgagaaaat
4081 ctatggaaaa atcaagaaga gactgctctg gggctctgac ctgtccacca tggtccggtg
4141 cgctaggtca tttggtgggc tcatggacga gatgaaggca cactgcatat cactcccagt
4201 acgagttggc atgaatatga atgaagatgg tccaataata tttgagaaac attccagata
4261 caaatatcac tatgatgcag attactctcg ttgggattca acacaacaga gggcagtatt
4321 agcagcagcc ttggaaatca tggtcagatt ctctgcagaa ccacaattgg cacaaatagt
4381 cgctgaggat ctactggccc ctagtgtagt agatgtagga gactttaaaa tcacaataaa
4441 tgaggggcta ccatctggcg tgccatgcac ttctcaatgg aactccatcg cacactggct
4501 gctaactctc tgtgccttgt ctgaagtcac caaactatcc cctgacatta tacaagcaaa
4561 ttccatgttc tcgttttacg gtgatgacga gattgtcagc accgacataa agttggaccc
4621 tgaacagttg accgccaagt tgaaagagta cggcctgaaa ccaacccgcc cagacaagac
4681 cgagggaccc ctgatcatca gtgaagattt ggacggactt actttcctcc gaaggacggt
4741 gactcgtgac ccagctggct ggtttggaaa actggaccaa agttcaattt tgaggcagat
4801 gtattggact agaggaccaa atcatgaaga tcccaacgag acaatgatac cccattctca
4861 aagacccata cagctcatgg cactgcttgg tgaagcctct cttcacggac cctctttcta
4921 cagtagaatc agtaaattgg ttataactga acttaaagaa ggtgggatgg acttttacgt
4981 gccaaggcag gaacccatgt tcaggtggat gaggttttct gacttgagca cgtgggaggg
5041 cgatcgcaat ctggctccca attttgtgaa tgaagatggc gtcgagtgac gccaacccat
5101 ctgatgggtc cgcagccaac ctcgtaccag aggtcaacaa tgaggttatg gctttggagc
5161 ccgttgttgg tgccgctatt gcggcacctg tagcgggcca acaaaatgta attgacccct
5221 ggattagaaa taattttgta caagcccctg gtggggagtt tacagtgtcc cccagaaatg
5281 ctccaggtga aatactatgg agcgcgcccc taggccctga cctaaatccc tacctatccc
5341 atctggccag gatgtacaat ggttatgcag gtggctttga agtgcaggta attctcgcgg
5401 ggaacgcgtt caccgccggg aagattatat ttgcagcagt cccaccaaat tttccaactg
5461 aaggcttaag tcctagccag gtcactatgt tcccccatat aatagtagat gttagacaat
5521 tggaacctgt gctgatcccc ttgcccgatg ttaggaataa tttctaccat tacaatcagt
5581 caaatgactc cactattaag ttgatagcaa tgttgtacac accacttagg gctaataatg
5641 ctggggatga tgttttcaca gtctcgtgtc gagttctcac gaggccatcc cccgattttg
5701 atttcatatt cttagtacca cccacagttg agtcaagaac caaaccattc tccgtcccag
5761 ttttaactgt tgaggagatg accaactcaa gattccccat ccctttggaa aagttgttca
5821 caggccccag cagtgcattt gttgttcaac cacaaaacgg cagatgcaca actgatggcg
5881 tgctcctagg caccacccaa ctttctcctg tcaacatctg caccttcaga ggggatgtca
5941 cccacatcac aggcagtcac aactacacta tgaatttggc ttctcaaaat tggaacaact
6001 acgacccgac agaagaaatc ccagctcccc taggaactcc agattttgtg gggaagattc
6061 aaggcatgct cacccaaacc acaaggacag atggttcaac acgcggccac aaagctacag
6121 tgtacactgg gagcgccgac tttgctccaa aactgggtag agttcaattt gaaactgaca
6181 caaaccatga ttttgaagcc aatcaaaaca caaagttcac cccagtcggt gtcatccaag
6241 atggtagcac cacccaccga aacgaacccc aacagtgggt gctcccaagt tactcaggca
6301 gaaatactca caatgtacat ttagcccccg ctgtagcccc cacctttccg ggtgagcaac
6361 ttctcttctt tagatctacc atgcccggat gcagcgggta ccccaacatg gatttggact
6421 gtctgctccc ccaggaatgg gtgcagtact tttaccaaga ggcagcccca gcacaatctg
6481 atgtggctct gctaagattt gtgaatccag acacaggtag ggttttgttt gagtgcaagc
6541 ttcacaaatc aggctatgtt acagtggctc acactggcca acatgatttg gttatccccc
6601 ccaatggtta ctttaggttt gattcctggg tcaaccagtt ctacacgctt gcccccatgg
6661 gaaatggaac ggggcgtaga cgtgcagtat aatggctgga gctttctttg ctggattggc
6721 atctgatgtc cttggctctg gacttggttc ccttatcaac gctggggctg gggccatcaa
6781 ccaaaaagtt gagtttgaaa ataacagaaa attgcaacag gcatccttcc aatttagcag
6841 caatttgcaa caggcttcct ttcaacatga taaagagatg ctccaagcac aaattgaggc
6901 caccaaaaag ctacaacagg aaatgatgag agttaagcag gcaatgctcc tagagggtgg
6961 gttctctgag acagatgcgg cccgcggggc aattaacgcc cccatgacaa aggctttgga
7021 ctggagcggg acaaggtact gggctccaga tgctagaatt acaacataca gtgcaggcca
7081 cttttccacc cctcaaccat cgggggcact gccaggaaga gctaatctta gggatgctgc
7141 ccctgctcgg ggaccctcca ccagaccttc taactcttct actgccacct ctgtgtattc
7201 aaatcaaact atttcaacga gacttggttc tacagctggt tctggaacca gtgtctcgag
7261 cctcccgtca actgcaagga ctaggagctg ggttgaggat caaaatagga atttgtctcc
7321 tttcatgagg ggggcccaca acatatcatt tgtcacccca ccatctagca gatcctctag
7381 ccaaggcaca gtctcaaccg tgcctaaaga aattttggac tcctggactg gcgctttcaa
7441 cacgcgcagg cagcctctct tcgctcacat tcgcaagcga ggggagtcac gggtgtaatg
7501 tgaaaagaca aaactgatta ttttcttttt cttttctt
//