Typing tool
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Typing tool
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Complete norovirus genomes
| LC726085 | GII.2 | |
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| GII.P16 |
ORF1: 1..5087
ORF2: 5068..6696
ORF3: 6696..7475
LOCUS LC726085 7499 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/1068F/Tokyo/2022/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726085
VERSION LC726085.1
KEYWORDS .
SOURCE Norovirus GII.2
ORGANISM Norovirus GII.2
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE A Genetic Analysis of Norovirus Cases Detected in Tokyo April
2021-March 2022
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7499)
AUTHORS Yaoita,Y., Hasegawa,M., Asakura,H., Nagano,M., Hayashi,Y.,
Negishi,A., Kawakami,M., Hayashi,M., Yamazaki,T., Kuroki,K.,
Kitamura,Y., Kaku,E., Isogai,M., Fujiwara,T., Miyake,H.,
Nagashima,M., Suzuki,J. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (23-AUG-2022) Contact:Yu Yaoita Tokyo Metropolitan
Institute of Public Health, Department of Microbiology;
Hyakunincho3-24-1, Shinjyuku, Tokyo 169-0073, Japan URL
:http://www.tokyo-eiken.go.jp/
FEATURES Location/Qualifiers
source 1..7499
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/1068F/Tokyo/2022/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2022-01"
gene <1..5087
/gene="POL"
CDS <1..5087
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDQ32371.1"
/translation="NDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAP
RDKTQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVAN
TAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAR
VELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKP
LNVLNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSA
SPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARK
VASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLT
LNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEEL
KQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHAR
IRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKSE
DDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEI
RKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFIT
STHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATV
LIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPY
IYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAP
KLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPP
RPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETF
TGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIR
CARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQR
AVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNS
IAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLK
PTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDP
NETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRW
MRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5068..6696
/gene="VP1"
CDS 5068..6696
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32372.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDIEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6696..7475
/gene="VP2"
CDS 6696..7475
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32373.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ctaacgacgc taccgttgcc gttgcttgca acaacaacaa cgacaaagaa aaatcttcag
61 gtgaaggctt atttacaaat atgtcttcca ccttaaagaa agccctcggg gctaggccca
121 aacagcctgc cccgagagac aaaacacaaa agcccccaag accaccaact cccgagttgg
181 tcaagaggat accccctcct ccacccaacg gcgaagaaga agaagagcca gtcattaggt
241 atgaggttaa gagtgggatc tctggcctgc ccgagctcac aacagtcccc caaccggacg
301 tggccaacac agcattcagt gttccaccac tgagcttgag agaaaacagg gaggccaagg
361 agccgctaac aggggcaata ctagagatgt gggatggaga gatataccac tatggcctgt
421 acgtggagaa aggcttagtg ttgggtgtgc acaaaccacc tgcagccata agcatggcaa
481 gagtggagct gacgccgttg tcattgtact ggcgtgtggt gtacactccc caatacctca
541 tctcccctga aaccctcagg aggctcaacg gagaggcatt cccttacacc gcctttgaca
601 acaactgcta tgccttttgc tgctgggtgt tagacctcaa tgactcatgg cttagcagga
661 ggatggtaca aagaacaacg ggcttcttca gaccttacca agagtggaac agaaaacccc
721 tgcctaccat ggatgactcc aaaattaaga aggtagcaaa tatattccta tgttcattgt
781 ccacattatt caccagaccc ataaaagacc tcataggaaa aattaaacca ttgaacgtac
841 tgaatatcct ggcaacgtgt gactggactt ttgccggaat agtggagtct ctgatattgc
901 ttgctgaact cttcggagtt ttctggacac ccccagatgt gtctgctatg atcgctccct
961 tactcgggga ctacgagttg caagggccag aagacctcgc cgttgaactc gtacctgtgg
1021 taatgggggg gattggtttg gtgttgggat tcaccaaaga gaaaattggc aaaatgttgt
1081 cctcagcagc atcaacactc agggcttgca aagatcttgg tgcctatggc ttagagatac
1141 tcaaattggt catgaagtgg ttcttcccaa agaaagagga ggccaatgag ctagctatgg
1201 tgagggccat agaggatgct gtactagacc ttgaggcaat agaaaataac cacatgacaa
1261 ccctgttgaa agataaagac agcttagcaa catacatgaa aacactggac atggaggagg
1321 agaaagccag gaggttgtcc acaaaatctg catcccctga catagttggg acaatcaacg
1381 ccctgctggc tcgaatagca gcggccaggt cattagtcca cagggccaag gaagagctat
1441 ctagtaggat aaggccagta gttgttatga tatctggtaa gccaggaata ggcaaaactc
1501 atctggccag ggaggtggca agaaaggtgg catccactct cacaggggat caaagagtcg
1561 gactcatacc acgaaacggt gtggaccatt gggatgcata caaaggtgag agagtcgtgc
1621 tgtgggacga ctatggcatg agtaacccta ttcatgatgc tcttcgcata caagaattgg
1681 ctgatacgtg tccccttacc ttaaattgtg acagaattga aaataaggga aaagtttttg
1741 acagtgaagt cataataatt acaacaaacc ttgccaatcc agccccactt gattatgtca
1801 actttgaggc ctgttccagg agaattgact tcctggtgta cgctgaggca ccagaagtag
1861 aaaaggcaaa acgggacttt cctggtcagc cagatatgtg gaaggatgcc ttcaagccgg
1921 acttttcaca catcaagcta cagcttgcac cccagggcgg ctttgacaag aatggcaaca
1981 ccccacatgg gaaaggagtg atgaagaccc tcactaccgg ttctctgatt gcccgtgcat
2041 caggcctact gcatgagagg atggatgaat ttgaactcca aggccccaca atcaccacct
2101 tcaatttcga ccgaaacaga atcacggcat tcagacaatt ggctgcagaa aacaagtatg
2161 gattggtgga taccatgaaa gttggcaatc aattaaaagg agtaaaaacc atggaagaac
2221 tcaaacaagc aatcaggaat gtgaccatca agaggtgcca gatcatctac ggtggttcca
2281 cgtatgacct tgaatctgat ggcaagggca aagttttggt ggaaaaggtc aagaacacct
2341 ctgtacagac caataacgag ttggctgggg ccctgcacca tctcaaacat gcccgaatca
2401 ggtactatgt caaatgtgtg caagaagcag tctattccat catacaaatt gccggcgctg
2461 cgtttgtcac cacgcgcatt gcacgccgca tgaacataca agaactctgg tcgaagccac
2521 aactagatca aaatgaatca gagactaagg aagaggcccc caagtcagaa gatgacgagt
2581 tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac aaaactggcc
2641 gtggcaagaa acacactgca ttctccagca aaggcttgag cgatgaggag tatgacgagt
2701 acaagaggat aagagaagag agaaatggga agtactctat agaggagtat cttcaagaca
2761 gagacaggta ctatgaggag ctcgccattg ccaaggccac ggaagaagac ttctgtgaag
2821 aggaggagat taaaatccgt cagagaattt tccgtcccac caggaaacaa agaaaggaag
2881 agagggccac attagggcta gtaacaggtt cagaaatcag aaaaagaaac cctgatgact
2941 tcaaacccaa agggaagctg tgggccgatg acaacaggag tgttgactac aatgagaaac
3001 tggactttga ggccccccca agcatatggt ctaggattgt gagctttggc tctggctggg
3061 gcttctgggt gtcaccaagc cttttcataa catcaactca tgtaatcccc gcaggcataa
3121 cagaagcatt tggggtctcc atcaaacaaa ttcagatcca caaatcaggc gaattttgcc
3181 gattcagatt cccaaaacca attagaccag atgtgacagg aatgatcttg gaagaaggtg
3241 cgcctgaggg caccgtggca actgtgctca tcaaacgccc caccggagag ctcatgcctc
3301 ttgcagccag aatgggaaca cacgcaacca tgaaaattca aggccgcatg gttggcggac
3361 agatgggtat gttgctcact ggatcaaatg ctaaaggaat ggacttagga acaactcctg
3421 gtgactgtgg ctgtccttac atctataaaa ggggcaatga ctatatagtc attggggtgc
3481 acactgcagc agcccgtggt ggaaacactg tcatctgtgc cacacaggga agtgagggtg
3541 aggcaactct tgagggtgga gatgacaaag gaacatactg tggggcaccc attctaggcc
3601 ctgggggtgc accaaaattg agcaccaaaa ccaaattttg gaggtcatcg aacacgcccc
3661 ttccaccagg gacatatgag cctgcctacc tcggtggccg tgatccgcgt gttaagggtg
3721 ggccttccct gcagcaggtg atgagagacc agttgaagcc attcactgaa cccaggggca
3781 aacctccaag accaagtgta ttggaagcag ccaaacaaac catcatcaat gtcctcgaac
3841 aaaccctgga ccctccacaa aaatggacat acgcacaggc ttgtgcctca cttgacaaaa
3901 ccacctccag cgggcacccc catcacgtcc gaaagaatga attctggaat ggtgagacct
3961 tcactggtaa actggcagac caagcatcaa aagcaaacct aatgtttgag gaagggaaac
4021 acatgacacc agtgtacaca gcagctctca aggacgagct agtcaagact gagaaaatct
4081 atggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg atccggtgcg
4141 ctaggtcatt tggtgggctt atggacgaga tgaaggcaca ctgcatatca ctcccagtcc
4201 gagttggcat gaatatgaat gaagatggcc caataatatt tgagaaacat tccagataca
4261 aatatcacta tgatgcagac tactctcgtt gggattcaac acaacagagg gcagttctag
4321 cagcagcctt ggaaatcatg gtcagattct ctgcagaacc acaattggca caaatagtcg
4381 ctgaggatct gctggcccct agtgtagtag atgtaggaga ctttaaaatt acaataaatg
4441 aagggctccc ttctggtgtg ccatgcactt ctcaatggaa ctccatcgca cactggctgc
4501 taactctctg tgccttgtct gaagtcacca aactgtcccc tgacattata caggcaaatt
4561 ccatgttctc attttacggt gatgacgaga tcgtcagtac cgacataaaa ttggaccctg
4621 aacagttaac cgccaaattg aaggagtacg gcctgaaacc aacccgccca gacaaaaccg
4681 agggacccct gattatcagt gaagatttga acggtctcac tttcctccga aggacggtga
4741 ctcgtgaccc ggctggctgg tttggaaaac tggaccaaag ctcaattttg aggcagatgt
4801 actggactag aggaccaaat catgaagacc ccaatgagac aatgataccc cattcccaaa
4861 gacccataca gctcatggca ctgcttggtg aagcctctct tcacggaccc tctttctaca
4921 gtaaaatcag taaattggtc ataactgaac tcaaagaagg tgggatggac ttttacgtgc
4981 caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg tgggagggcg
5041 atcgcaatct ggctcccaat tttgtgaatg aagatggcgt cgaatgacgc cgctccatct
5101 actgatggtg cagccggcct cgtgccagaa agtaacaatg aggtcatggc tcttgaaccc
5161 gtggctggtg ccgccttggc agccccggtc actggtcaaa caaatattat agacccttgg
5221 attagagcaa attttgtcca ggcccctaat ggtgaattta cagtctctcc ccgaaatgcc
5281 cctggtgaag tgctactgaa tctagagttg ggtccagaat taaatcctta tctggcacat
5341 ttagcaagaa tgtacaatgg gtatgccggt gggatggagg tgcaggtcat gttggctggg
5401 aacgcgttca cagccggcaa gttggtcttc gccgccgtgc caccccactt cccggttgaa
5461 aaccttagcc cacagcaaat caccatgttc cctcatgtga tcatagatgt gagaaccttg
5521 gaacctgttt tattaccact ccctgatgtt aggaataact tcttccatta taaccagaaa
5581 gatgatccca agatgagaat tgtggctatg ctttataccc ccctcaggtc taatggttca
5641 ggtgatgatg tgtttacagt ctcctgtaga gtgttgacta gaccttcccc tgactttgac
5701 ttcacatacc tggtgccacc aacagtggag tctaaaacaa agccattcac cctcccaatc
5761 ctcacacttg gggaactttc caattctagg ttcccagtgt ccatagacca gatgtacacc
5821 agccccaatg aaattatatc agtgcagtgt caaaatggta ggtgcacact ggacggggag
5881 ctccaaggga caacacaact ccaagtcagt ggcatttgtg ctttcaaagg tgaggtgacc
5941 gcccacttgc atgacaatga tcacctatat aatgtcacca tcacaaactt gaatgggtcc
6001 ccttttgatc cctccgagga tatccctgcc cctttgggtg tgcctgactt ccagggaagg
6061 gtttttggta tcatctccca aagagataaa cacaatagtc ctgggcataa tgaaccagca
6121 aacaggggac acgacgctgt ggtccctact tacacagcac agtacactcc aaaacttgga
6181 caaattcaaa ttggcacatg gcaaacagac gaccttacag tcaaccaacc agtcaaattc
6241 accccagttg gactcaatga cattgaacac tttaaccaat gggtggtccc taggtatgct
6301 ggtgccctaa acctcaatac aaaccttgcc ccttctgttg ctccagtatt tccaggagag
6361 cgcctgctct tcttcagatc atacattccc ctcaagggcg gttatggaaa cccagccatt
6421 gattgcctac taccacaaga gtgggtgcaa cacttctatc aggaagcagc cccttcaatg
6481 agtgaggtgg ccctcgtcag atacatcaac ccggacactg gtcgggcact gtttgaggcc
6541 aagctccaca gagctggttt catgacggtc tcgagcaaca ccagtgcccc ggtggttgtg
6601 cctgccaacg ggtacttcag atttgattct tgggtgaacc aattttattc tctcgccccc
6661 atgggaactg ggaatgggcg tagaagggtt caataatggc tggagctttc gtagctggtc
6721 ttgcagggga cgtactcagc aatgggctta gttcattaat caatgcaggt gctaatgcaa
6781 taaatcagag ggcagaattc gattttaatc aaaaattgca gcaaaattct tttaatcatg
6841 ataaggagat gttgcaggct cagattcagg caactaagca gctgcaggca gacatgatgg
6901 ctataaaaca aggggtcttg accgctggcg gcttttcccc tgctgatgca gccagaggtg
6961 ctgtaaacgc gcccatgaca caggcgctgg attggaatgg cacaaggtat tgggcaccaa
7021 actccatgag gaccacatct tattctggaa aattcacatc aaccgcccca gtgaggcagg
7081 ctgacttcca gcacacccaa agccggcctt cgagtggctc ctctgtgtct tcctttgcca
7141 ctcagtcttc aaggccaact ctgaccacaa ccactggttc ctcacatggc acagcctcat
7201 caaattcaac tcgcagcaca agcctctccc aatcaacggt ctccagagct acatctagga
7261 ctggtgagtg ggttagagat caaaatagaa atttggaacc ctacatgcat ggtgccttac
7321 agacagcctt tgtcacccca ccttccagca gggcatctga cgggacagtc tcaaccgtcc
7381 ctaaaggtgt tttggactcc tggacacctg cgtttaacac ccgcaggcag ccgctttttg
7441 cacacctccg taagaggggg gagtcacaag cttagtgaaa aggtgaaaat ttatttagg
//