Typing tool
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Typing tool
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Complete norovirus genomes
| LC726083 | GII.2 | |
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| GII.P16 |
ORF1: 1..5088
ORF2: 5069..6697
ORF3: 6697..7476
LOCUS LC726083 7500 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/727F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726083
VERSION LC726083.1
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JOURNAL Unpublished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 7500)
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..7500
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/727F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-10"
gene <1..5088
/gene="POL"
CDS <1..5088
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDQ32365.1"
/translation="SNDATVAVACNNNNDKEKSSGEGLFTNMSTTLKKALGARPKQPA
PRDKPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
RVELTPLSLYWRVVYTPQYLIPPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKAANIFLCSLSTLFTRPIKDLIGKIK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDIA
VELVPVVMGGIGLVLGFTKEKIGKVLSSAASTLRACRDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTITTFNFDRNKITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEE
LKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHA
RIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEEAPKS
EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGPE
IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPAGITEAFGVPVKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPGVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLSTMI
RCARSFGGLMDEMKTHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLNPEQLTAKLKEYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5069..6697
/gene="VP1"
CDS 5069..6697
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32366.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIVDPWIRANFVQAPNGEFTVSPRNAPGEVLLDLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNNTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6697..7476
/gene="VP2"
CDS 6697..7476
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32367.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTASVGQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSARSTSLSQSTVSRVTSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 tctaacgacg ctaccgttgc cgttgcttgc aacaacaaca acgacaaaga aaaatcttca
61 ggtgaaggct tattcacaaa tatgtctacc accttaaaga aagccctcgg ggctaggccc
121 aaacagcctg ccccgagaga caaaccacaa aagcccccaa gaccaccaac tcccgagttg
181 gtcaagagga tacctcctcc tccacctaat ggcgaagaag aagaagaacc agtcattagg
241 tatgaggtca agagtgggat ctctggcctg cccgagctca caacagtccc ccaaccggac
301 gtggccaaca cagcattcag tgttccacca ctgagcttga gagaaaacag ggaggccaag
361 gagccgctaa cgggggcaat attagagatg tgggatggag agatatacca ctatggcctg
421 tacgtggaga aaggtttagt gttgggtgtg cacaaaccac ctgcagccat aagcatggca
481 agagtggagc tgacgccgtt gtcattgtac tggcgtgtgg tgtacactcc ccaatatctc
541 atcccccctg aaaccctcag gaggctcaac ggagaggcat tcccttacac tgcctttgac
601 aacaactgct atgccttttg ctgctgggtg ttagacctca atgactcatg gcttagtagg
661 aggatggtac aaagaacaac gggcttcttc agaccttacc aagagtggaa cagaaaaccc
721 ctgcctacca tggatgactc caaaattaag aaggcagcaa atatattcct atgttcattg
781 tccacattgt tcaccagacc cataaaagac ctcataggaa aaattaaacc attgaacata
841 ttgaatatcc tggcaacgtg tgactggact tttgccggaa tagtggagtc tctgatacta
901 cttgctgaac tcttcggagt tttctggaca cccccagatg tgtctgctat gatcgctccc
961 ttactcgggg actacgagtt gcaagggcca gaagacatcg ccgttgaact cgtacctgtg
1021 gtaatggggg ggattggttt ggtgttggga ttcactaaag agaaaattgg caaagtgttg
1081 tcctcagcag catcaacact cagggcttgc agagatcttg gtgcctatgg cttagagata
1141 ctcaaattgg tcatgaagtg gttcttccca aagaaagagg aggccaatga gctagctatg
1201 gtgagggcca tagaggatgc tgtactagat cttgaggcaa tagaaaataa ccacatgaca
1261 accctgttga aagacaaaga cagcttagca acatacatga aaacactgga catggaggag
1321 gagaaagcca ggaggttgtc cacaaaatct gcatcccctg acatagttgg gacaatcaac
1381 gccctgctgg ctcgaatagc agcggccagg tcattagtcc acagggccaa agaagagcta
1441 tctagcagga taagaccagt agttgttatg atatctggca aaccaggaat aggcaaaact
1501 catctggcca gggaggtggc aagaaaggtg gcatctactc tcacagggga tcaaagagtc
1561 ggactcatac cacgaaacgg tgtggaccat tgggatgcat acaaaggtga gagagtcgtg
1621 ctgtgggacg actatggcat gagtaaccct attcatgatg ctcttcgcat acaagaattg
1681 gctgatacgt gtccccttac cttaaattgt gacagaatcg aaaacaaggg aaaagttttt
1741 gacagtgaag tcataataat tacaacaaac cttgccaatc cagccccact tgattatgtc
1801 aactttgagg cctgttccag gaggattgat ttcctggtgt atgctgaggc accagaagta
1861 gaaaaggcaa aacgggactt tcctggtcag ccagatatgt ggaaggacgc tttcaagccg
1921 gacttttcac acatcaagct acagctcgca ccccaaggcg gctttgacaa gaatggcaac
1981 accccacatg ggaaaggagt gatgaagacc ctcactaccg gttctctgat tgcccgtgca
2041 tcaggcctac tgcatgagag gatggatgaa tttgaactcc aaggtcccac aatcaccacc
2101 ttcaatttcg accggaacaa aatcacggca ttcagacaat tggctgcaga aaacaagtat
2161 ggattggtgg ataccatgaa agttggcaat caattaaaag gagtgaaaac tatggaagaa
2221 ctcaaacaag caatcaggaa tgtgaccatc aagaggtgcc agatcatcta cggtggttcc
2281 acgtatgacc ttgaatctga cggcaagggc aaagttttgg tggaaaaggt caagaacacc
2341 tctgtacaga ccaacaacga gttggctggg gctctgcacc atctcaaaca tgcccgaatc
2401 aggtactatg tcaaatgtgt gcaagaagca gtctattcca tcatacaaat tgccggtgct
2461 gcttttgtca ccacgcgcat tgcacgccgc atgaacatac aagaactctg gtcgaagcca
2521 caactagatc aaaatgaatc agagactaag gaagaggccc ccaagtcaga agatgacgag
2581 ttcatcatat cttctaagga catcaaggag gaaggaaaga agggcaaaaa caaaactggc
2641 cgtggcaaga agcacactgc attctccagc aagggcttga gcgatgagga gtatgacgag
2701 tacaagagga taagagaaga gagaaatggg aagtactcta tagaggagta tcttcaagac
2761 agggacagat actatgagga gctcgccatt gccaaggcca cggaagaaga cttttgtgaa
2821 gaagaggaga tcaaaatccg tcagagaatt ttccgtccca ccaggaaaca aagaaaggaa
2881 gagagggcca cattagggct agtaacaggt ccagaaatca gaaaaagaaa ccctgatgac
2941 ttcaaaccca aagggaagct gtgggccgat gacaacagga gtgttgacta caatgagaaa
3001 ctggactttg aggccccccc aagcatatgg tctaggattg tgagctttgg ttctggctgg
3061 ggcttctggg tgtcaccaag tcttttcata acatcaactc atgtaatccc cgcaggcata
3121 acagaagcat ttggagttcc cgtcaaacaa attcagatcc acaaatcagg cgaattttgc
3181 cgatttagat tcccaaaacc aattagacca gatgtgacag gaatgatctt ggaagagggt
3241 gcgcctgagg gcaccgtggc aactgtgctc atcaaacgcc ccaccggaga gctcatgcct
3301 cttgcagcca gaatgggaac acacgcaacc atgaaaattc aaggccgcat ggttggcgga
3361 cagatgggca tgttgctcac tggatcaaat gctaaaggga tggacttggg aacaactcct
3421 ggtgattgtg gctgtcctta catctataaa aggggcaatg actatatagc cattggggtg
3481 cacactgcag cagcccgtgg tggaaacact gtcatctgtg ccacacaggg aagtgagggt
3541 gaggcaactc ttgagggtgg agacgacaaa ggaacatact gtggggcacc cattctaggc
3601 cctgggggtg caccaaaatt gagcaccaaa accaaatttt ggagatcatc gaacacgccc
3661 cttccaccag ggacatatga gcctgcctac ctcggtggcc gtgatccgcg tgttaagggt
3721 gggccttccc tgcagcaggt aatgagagac cagttgaagc cattcactga acccaggggc
3781 aaacctccaa gaccaggtgt attggaagca gccaaacaaa ccatcatcaa tgtcctcgaa
3841 caaaccctgg accctccaca aaaatggaca tacgcacagg cgtgtgcctc acttgacaaa
3901 accacttcca gcgggcaccc ccatcacgtc cgaaagaatg aattctggaa tggtgagacc
3961 ttcactggta aactggcaga ccaagcatca aaagcaaacc taatgtttga ggaagggaaa
4021 cacatgacac cagtgtacac agcagcactc aaggacgagc tagtcaagac tgagaaagtc
4081 tatggaaaga tcaagaagag actgctctgg ggctctgact tgtccaccat gatccggtgt
4141 gctaggtcat ttggcgggct tatggacgag atgaagacac actgcatatc actcccagtc
4201 cgagttggca tgaatatgaa tgaggatggc ccaataatat ttgagaaaca ttctagatac
4261 aaatatcact atgatgcaga ctactctcgt tgggattcaa cacaacagag ggcagtacta
4321 gcagcagcct tggaaatcat ggtcagattc tctgcagaac cacagttggc acaaatagtc
4381 gctgaggatc tgctggcccc tagtgtagta gatgtaggag actttaaaat tacaataaat
4441 gaagggctcc cttctggtgt gccatgcact tctcaatgga actccatcgc acactggcta
4501 ctaactcttt gtgccttgtc tgaagtcacc aaactgtccc ctgatattat acaggcaaat
4561 tccatgttct cattttacgg tgatgacgag attgtcagca ccgacataaa attgaaccct
4621 gaacagttaa ccgccaaatt gaaggagtac ggtctaaaac caacccgccc agacaaaacc
4681 gagggacccc tgattatcag tgaagatttg aacggtctca ccttcctccg aaggacggtg
4741 actcgtgacc cagctggctg gtttggaaaa ctggaccaaa gctcaatttt gaggcagatg
4801 tactggacta gaggaccaaa tcatgaagac cccaatgaga caatgatacc ccattctcaa
4861 agacccatac agctcatggc actgcttggt gaagcctctc ttcacggacc ctctttctat
4921 agtaaaatca gtaaattggt cataactgaa ctcaaagaag gtggaatgga cttttacgtg
4981 ccaaggcagg aacccatgtt caggtggatg aggttttctg acttgagcac gtgggagggc
5041 gatcgcaatc tggctcccaa tttcgtgaat gaagatggcg tcgaatgacg ccgctccatc
5101 tactgatggt gcagccggcc tcgtgccaga aagtaacaat gaggtcatgg ctcttgaacc
5161 cgtggctggt gccgccttgg cagctccggt caccggtcaa acaaatattg tagacccttg
5221 gattagagca aatttcgtcc aggcccccaa tggtgaattt acagtctccc cccgaaatgc
5281 ccctggtgaa gtgctactgg atctagagct gggtccagaa ttaaatcctt atctggcaca
5341 tttagcaaga atgtacaatg ggtatgccgg tgggatggag gtgcaggtca tgttggctgg
5401 gaacgcgttc acagccggca agttggtctt cgccgccgtg ccaccccact tcccgattga
5461 aaaccttagc ccacagcaaa tcaccatgtt ccctcatgtg atcatagatg tgagaaccct
5521 ggaacctgtt ttattaccac tccctgatgt taggaataac ttcttccatt ataaccagaa
5581 agatgatccc aagatgagaa ttgtggccat gctttatacc cccctcaggt ctaatggttc
5641 aggtgatgat gtgtttacag tctcctgtag agtgttgact agaccttccc ctgactttga
5701 cttcacatac ctggtgccac caacagtgga gtctaaaaca aagccattca ccctcccaat
5761 cctcacactt ggggaacttt ccaattctag gttcccagtg tccatagatc agatgtacac
5821 cagccctaat gaaattatat cagtgcagtg tcaaaatggt aggtgcacac tggacgggga
5881 gctccaaggg acaacacaac tccaagtcag tggcatttgt gcttttaaag gtgaagtgac
5941 cgcccacttg catgacaatg atcacctata taatgtcacc atcacaaact tgaatgggtc
6001 cccttttgat ccctccgagg atatccctgc ccctctgggt gtgcctgact tccagggaag
6061 ggtttttggt gtcatctccc aaagagataa acacaatagt cctgggcata atgaaccagc
6121 aaacagggga cacgacgctg tggtccctac ttacacagca cagtacactc caaaacttgg
6181 acaaattcaa attggcacat ggcaaactga cgaccttaca gtcaaccaac cagtcaaatt
6241 caccccagtt ggactcaata acactgaaca ctttaaccaa tgggtggtcc ctaggtatgc
6301 tggtgcccta aacctcaata caaaccttgc cccttctgtt gctccagtat ttccaggaga
6361 gcgcctgctc ttcttcagat catacattcc cctcaagggc ggttatggaa acccagccat
6421 tgattgccta ctaccacaag agtgggtgca acacttctat caggaagcag ccccttcaat
6481 gagtgaggtg gcccttgtca gatacatcaa cccggacact ggtcgggcac tgtttgaggc
6541 caagctccac agagctggtt tcatgacagt ctcgagcaac accagtgccc cggtggttgt
6601 gcctgccaac gggtacttca gatttgattc ttgggtgaac caattttatt ctctcgcccc
6661 catgggaact gggaatgggc gtagaagggt tcaataatgg ctggagcttt tgtagctggt
6721 cttgcagggg acgtgctcag caatgggctt agttcattga tcaatgcagg tgctaatgca
6781 ataaatcaga gggcagaatt tgattttaat cagaagttgc agcaaaattc ttttaatcat
6841 gataaggaga tgttgcaggc tcagattcag gcaactaagc agctgcaggc agacatgatg
6901 gctataaaac aaggggtctt gaccgctggc ggcttttccc ctgctgatgc agccagaggt
6961 gctgtgaacg cgcccatgac acaggcgctg gattggaatg gcacaaggta ttgggcacca
7021 aactccatga ggaccacatc ttattctgga aaattcacat caaccgcctc agtggggcag
7081 gctgactttc agcacaccca aagccggcct tcgagtggct cctctgtgtc ttcctttgcc
7141 actcagtctt caaggccaac tctgaccaca accactggtt cctcacatgg cacagcctca
7201 tcaaattcag ctcgcagcac aagcctctcc caatcaacgg tctccagagt tacatctagg
7261 actggtgagt gggttagaga tcaaaataga aatttggaac cctacatgca tggtgcctta
7321 cagacagcct ttgtcacccc accttccagc agggcatctg acgggacagt ctcaaccgtc
7381 cctaaaggtg ttttggactc ctggacacct gcgtttaaca cccgcaggca gccgcttttt
7441 gcacacctcc gtaagagggg ggagtcacaa gcttagtgaa aaggtgaaaa tttatttagg
//