Typing tool
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Typing tool
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Complete norovirus genomes
| LC726082 | GII.2 | |
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| GII.P16 |
ORF1: 1..5087
ORF2: 5068..6696
ORF3: 6696..7475
LOCUS LC726082 7492 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/691F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726082
VERSION LC726082.1
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JOURNAL Unpublished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 7492)
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..7492
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/691F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-10"
gene <1..5087
/gene="POL"
CDS <1..5087
/gene="POL"
/note="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BDQ32362.1"
/translation="NDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAP
RDKPQKPPRPPTPELVKRVPSPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPGVAN
TAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAR
VELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKAANVFLCSLSTLFTRPIKDLIGKIKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDIAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSA
SPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARK
VASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLT
LNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERMDEFELQGPTITTFNFDRNKITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEEL
KQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVERVKNTSVQTNNELAGALHHLKHAR
IRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESENKEEAPKSE
DDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIE
EYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEI
RKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFIT
STHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATV
LIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPY
IYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAP
KLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPP
RPGVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETF
TGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLSTMIR
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="BDQ32363.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDINVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6696..7475
/gene="VP2"
CDS 6696..7475
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32364.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNASMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRNTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 ctaacgacgc taccgttgcc gttgcttgca acaacaacaa cgacaaagaa aaatcttcag
61 gtgaaggctt attcacaaat atgtcttcca ccttaaagaa agccctcggg gctaggccca
121 aacagcctgc cccgagagac aaaccacaaa agcccccaag accaccaact cccgagttgg
181 tcaagagggt accctctcct ccacctaatg gcgaagaaga agaagaacca gtcattaggt
241 atgaggttaa gagtgggatc tctggcctgc ccgagctcac aacagtcccc caaccgggcg
301 tggccaacac agcattcagt gttccaccac tgagcttgag agaaaacagg gaggccaagg
361 agccgctaac gggggcaata ttagagatgt gggatggaga gatataccac tatggcctgt
421 acgtggagaa aggcttagtg ttgggtgtgc acaaaccacc tgcagccata agcatggcaa
481 gagtggagct gacgccgttg tcattgtact ggcgtgtggt gtacactccc caatatctca
541 tctcccctga aaccctcagg aggctcaacg gagaggcatt cccctacacc gcctttgaca
601 acaactgcta tgccttttgc tgctgggtgt tagacctcaa tgactcatgg cttagtagga
661 ggatggtaca aagaacaacg ggcttcttca gaccttacca agagtggaac agaaaacccc
721 tgcctaccat ggatgactcc aaaattaaga aggcagcaaa tgtattccta tgttcattgt
781 ccacattgtt caccagaccc ataaaagacc tcattggaaa aattaaaccg ttgaacatat
841 tgaacatcct ggcaacgtgt gactggactt ttgccggaat agtggagtct ctgatactac
901 ttgctgaact cttcggagtt ttctggacac ccccagatgt gtctgctatg atcgctccct
961 tactcggaga ctacgagttg caagggccag aagacatcgc cgttgaactc gtacctgtgg
1021 taatgggggg gattggtttg gtgttaggat tcaccaaaga gaaaattggc aaaatgttgt
1081 cctcagcagc atcaacactc agggcttgca aagatcttgg tgcctatggc ttagagatac
1141 tcaaattggt catgaagtgg ttcttcccaa agaaagagga ggccaatgag ctagctatgg
1201 tgagggccat agaggatgct gtactagatc ttgaggcaat agaaaataac cacatgacaa
1261 ccctgttgaa agacaaagac agcttagcaa catacatgaa aacactggac atggaggagg
1321 agaaagccag gaggttgtcc acaaaatctg catcccctga catagttggg acaatcaacg
1381 ccctgttggc tcgaatagca gcggccaggt cattagtcca cagggccaaa gaagagctat
1441 ctagcaggat aagaccagta gttgttatga tatctggcaa accaggaata 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 acagaatcga aaacaaggga aaagtttttg
1741 acagtgaagt cataataatt acaacaaacc ttgccaatcc agccccactt gattatgtca
1801 actttgaggc ctgttccagg aggattgatt tcctggtgta tgctgaagca ccagaagtag
1861 aaaaggcaaa acgggacttt cctggtcagc cagatatgtg gaaggacgct ttcaagtcgg
1921 acttttcaca catcaagcta cagctcgcac cccaaggcgg ctttgacaag aatggcaaca
1981 ccccacatgg gaaaggagtg atgaagaccc tcactaccgg ttctctgatt gcccgtgcat
2041 caggcctact gcatgagagg atggacgaat ttgaactcca aggtcccaca atcaccacct
2101 tcaatttcga ccggaacaaa atcacggcat tcagacaatt ggctgcagaa aacaagtatg
2161 gattggtgga taccatgaaa gttggtaatc aattaaaagg agtgaaaact atggaagaac
2221 tcaaacaagc aatcaggaat gtgaccatca agaggtgcca gatcatctac ggtggttcca
2281 cgtatgacct tgaatctgac ggcaagggca aagttttggt ggaaagggtc aagaacacct
2341 ctgtacagac caacaacgag ttggctgggg ctctgcacca tcttaaacat gcccgaatca
2401 ggtactatgt caaatgtgtg caagaagcag tctattccat catacaaatt gccggtgctg
2461 cgtttgtcac cacgcgcatt gcacgccgca tgaacataca agaactctgg tcgaagccac
2521 aactagatca aaatgaatca gagaataagg aagaggcccc caagtcagaa gatgacgagt
2581 tcatcatatc ttctaaggac atcaaggagg aaggaaagaa gggcaaaaac aaaactggcc
2641 gtggcaagaa gcacactgca ttctccagca agggcttgag cgatgaggag tatgacgagt
2701 acaagaggat aagagaagag agaaatggga agtactctat agaggagtat cttcaagaca
2761 gagacagata ctatgaggag ctcgctattg ccaaggccac ggaagaagac ttttgtgaag
2821 aggaggagat caaaatccgt cagagaattt tccgtcccac caggaaacaa agaaaggaag
2881 agagggccac attagggcta gtaacaggtt cagaaatcag aaaaagaaac cctgatgact
2941 tcaaacccaa agggaagctg tgggccgatg acaacaggag tgttgactac aatgagaaac
3001 tggactttga ggccccccca agcatatggt ctaggattgt gagctttggt tctggctggg
3061 gcttctgggt gtcaccaagc cttttcataa catcaactca tgtaatcccc gcaggcataa
3121 cagaagcatt tggagttccc atcaaacaaa ttcagatcca caaatcaggc gaattttgcc
3181 gatttagatt cccaaaacca attagaccag atgtgacagg aatgatcttg gaagagggtg
3241 cgcctgaggg caccgtggca actgtgctca tcaaacgccc caccggagag ctcatgcctc
3301 ttgcagccag aatgggaacg cacgcaacca tgaaaattca aggccgcatg gttggcggac
3361 agatgggtat gttgctcact ggatcaaatg ctaaagggat ggacttggga acaactcctg
3421 gtgattgtgg ctgtccttac atctacaaaa ggggcaatga ctatatagcc attggggttc
3481 acactgcagc agcccgtggt ggaaacactg tcatctgtgc cacacaggga agtgagggtg
3541 aggcaactct tgagggtgga gatgacaaag gaacatactg tggggcaccc atcctaggcc
3601 ctgggggtgc accaaaattg agcaccaaaa ccaaattttg gagatcatcg aacacgcccc
3661 ttccaccagg gacgtatgag cctgcctacc tcggtggccg tgatccgcgt gttaagggtg
3721 ggccttccct gcagcaggta atgagagacc agttgaagcc attcactgaa cccaggggca
3781 aacctccaag accaggtgta ttggaagcag ccaaacaaac catcatcaat gtcctcgaac
3841 aaaccctgga ccctccacaa aaatggacat acgcacaggc gtgtgcctca cttgacaaaa
3901 ccacttccag cgggcacccc catcacgtcc gaaagaatga attctggaat ggtgagacct
3961 tcactggtaa actggcagac caagcatcaa aagcaaacct aatgtttgag gaagggaaac
4021 acatgacacc agtgtacaca gcagcactca aggacgagct agtcaagact gagaaagtct
4081 acggaaagat caagaagaga ctgctctggg gctctgactt gtccaccatg atccggtgtg
4141 ctaggtcatt tggcgggctt atggacgaaa tgaaggcaca ctgcatatca ctcccagtcc
4201 gagttggcat gaatatgaat gaagatggcc caataatatt tgagaaacat tccagataca
4261 aatatcacta tgatgcagac tactctcgtt gggattcaac acaacagagg gcagtactag
4321 cagcagcctt ggaaatcatg gtcagattct ctgcagaacc acaattggca caaatagtcg
4381 ctgaggatct gctggcccct agtgtagtgg atgtaggaga ctttaaaatt acaataaatg
4441 aagggctccc ttctggtgtg ccatgcactt ctcaatggaa ctccatcgca cactggctac
4501 taactctttg tgccttgtct gaagtcacca aactgtcccc tgatattata caggcaaatt
4561 ccatgttctc attttacggt gatgacgaga ttgtcagcac cgacataaaa ttggaccctg
4621 aacagttaac cgccaaattg aaggagtacg gtctaaaacc aacccgccca gacaaaaccg
4681 agggacccct gattatcagt gaagatttga acggtctcac tttcctccga aggacggtga
4741 ctcgtgaccc agctggctgg tttggaaaac tggaccaaag ctcaattttg aggcagatgt
4801 actggactag agggccaaat catgaagacc ccaatgagac aatgataccc cattctcaaa
4861 gacccataca gctcatggca ctgcttggtg aagcctctct tcacggaccc tctttctaca
4921 gtaaaatcag taaattggtc ataactgaac tcaaagaagg tggtatggac ttttacgtgc
4981 caaggcagga acccatgttc aggtggatga ggttttctga cttgagcacg tgggagggcg
5041 atcgcaatct ggctcccaat ttcgtgaatg aagatggcgt cgaatgacgc cgctccatct
5101 actgatggtg cagccggcct cgtgccagaa agtaacaatg aggtcatggc tcttgaaccc
5161 gtggctggtg ccgccttggc agctccggtc accggtcaaa caaatattat agacccttgg
5221 attagagcaa attttgtcca ggcccccaat ggtgaattta cagtctcccc ccgaaatgcc
5281 cctggtgaag tgctactgaa tctagagctg ggtccagaat taaatcctta tctggcacat
5341 ttagcaagaa tgtacaatgg gtatgccggt gggatggagg tgcaggtcat gttggctggg
5401 aacgcgttca cagccggcaa gttggtcttc gccgccgtgc caccccactt cccgattgaa
5461 aaccttagcc cacagcaaat caccatgttt cctcatgtga tcatagatgt gagaaccctg
5521 gaacctgttt tgttaccact ccctgacgtt aggaataact tcttccatta taaccagaaa
5581 gatgatccca agatgagaat tgtggccatg ctttacaccc ccctcaggtc taatggttca
5641 ggtgatgatg tgtttacagt ctcctgtaga gtgttgacta gaccttcccc tgactttgac
5701 ttcacatacc tggtgccacc aacagtggag tctaaaacaa agccattcac cctcccaatc
5761 ctcacacttg gggaactttc caattctagg ttcccagtgt ccatagatca gatgtacacc
5821 agccctaatg aaattatatc agtgcagtgt caaaatggta ggtgcacact ggacggggag
5881 ctccaaggga caacacaact ccaagtcagt ggcatttgtg cttttaaagg tgaagtgacc
5941 gcccacttgc atgacaatga tcacctatat aatgttacca tcacaaactt gaatgggtcc
6001 ccttttgatc cctccgagga tatccctgcc cctctgggtg tgcctgactt ccagggaagg
6061 gtttttggtg tcatctccca aagagataaa cacaatagtc ctgggcataa tgaaccagca
6121 aacaggggac acgacgctgt ggtccctact tacacagcac agtacactcc aaaacttgga
6181 caaattcaaa ttggcacatg gcaaactgac gacattaatg tcaaccaacc agtcaaattt
6241 accccagttg gactcaacga cactgaacac ttcaatcaat gggtggtccc taggtatgct
6301 ggtgccctaa acctcaatac aaaccttgcc ccttctgttg ctccagtatt tccaggagag
6361 cgcctgctct tcttcagatc atacatcccc ctcaagggcg gttatggaaa cccagccatt
6421 gattgcctgc taccacaaga gtgggtgcaa cacttctatc aggaagcagc cccttcaatg
6481 agtgaggtgg cccttgtcag atacatcaac ccggacactg gtcgggcact gtttgaggcc
6541 aagctccaca gagctggttt catgacagtc tcgagcaaca ccagtgcccc ggtggttgtg
6601 cctgccaacg ggtacttcag atttgattct tgggtgaacc aattttattc tctcgccccc
6661 atgggaactg ggaatgggcg tagaagggtt caataatggc tggagctttt gtagctggtc
6721 ttgcagggga cgtgctcagc aatgggctta gttcattaat caatgcaggt gctaatgcaa
6781 taaatcagag ggcagaattt gattttaatc agaagttgca gcaaaattct tttaatcatg
6841 ataaggagat gttgcaggct cagattcagg caactaaaca gctgcaggca gacatgatgg
6901 ctataaaaca aggggtcttg accgctggcg gcttttcccc tgctgatgca gccagaggtg
6961 ctgtgaacgc gtccatgaca caggcgctgg attggaatgg cacaaggtat tgggcaccaa
7021 actccatgag gaccacatct tattctggaa aattcacatc aaccgcccca gtgaggcagg
7081 ctgactttca gcacacccaa agccggcctt cgagtggctc ctctgtgtct tcctttgcca
7141 ctcagtcttc aaggccaact ctgaccacaa ccactggttc ctcacatggc acagcctcat
7201 caaattcaac tcgcaacaca agcctctccc aatcaacggt ctccagagct acatctagga
7261 ctggcgagtg ggttagagat caaaatagaa atttggaacc ctacatgcat ggtgccttac
7321 aaacagcctt tgtcacccca ccttccagca gggcatctga cgggacagtc tcaaccgtcc
7381 ctaaaggtgt tttggactcc tggacacctg cgtttaacac ccgcaggcag ccgctttttg
7441 cacacctccg taagaggggg gagtcacaag cttagtgaaa aggtgaaaat tg
//