Typing tool
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Typing tool
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Complete norovirus genomes
| LC726088 | GII.2 | |
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| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6692
ORF3: 6692..7471
LOCUS LC726088 7484 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/1001F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726088
VERSION LC726088.1
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JOURNAL Unpublished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 7484)
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..7484
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/1001F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-12"
gene <1..5083
/gene="POL"
CDS <1..5083
/gene="POL"
/note="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BDQ32380.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPR
DKPQKPPRPPTPELVKRIPPPPPNGEEEEEPAIRYEVKSGISGLPELTTVPQPDVANT
AFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARV
ELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLNR
RMIQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPL
NILNILATCDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRD
FPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELK
QAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARI
RYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKEETPKSED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPAGITEAFGVPINQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIAIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRC
ARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSI
AHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKP
TRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5064..6692
/gene="VP1"
CDS 5064..6692
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32381.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKYNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPAKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6692..7471
/gene="VP2"
CDS 6692..7471
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32382.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 cgacgctacc gttgccgttg cttgcaacaa caacaacgac aaagaaaaat cttcaggtga
61 aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggcta ggcccaaaca
121 gcctgccccg agagacaaac cacaaaagcc cccaagacca ccaactcccg agttggtcaa
181 gaggataccc cctcctccac ctaacggcga agaagaagaa gaaccagcca ttaggtatga
241 ggttaagagt gggatctctg gcctgcccga gctcacaaca gtcccccaac cggacgtggc
301 caacacagca ttcagtgttc caccactgag cttgagagaa aacagggagg ccaaggagcc
361 gctaacaggg gcgatattag agatgtggga tggagagata taccactatg gcctgtacgt
421 ggagaaaggc ttagtgttgg gtgtgcacaa accacctgca gccataagca tggcaagagt
481 ggagctgacg ccgttgtcat tgtactggcg tgtggtgtac actccccaat acctcatctc
541 ccctgaaacc ctcaggaggc tcaacggaga ggcattccct tacaccgcct ttgacaacaa
601 ctgctatgcc ttttgctgct gggtgttaga cctcaatgac tcatggctta acaggaggat
661 gatacaaaga acaacgggct tcttcagacc ttaccaagag tggaacagaa aacccctgcc
721 taccatggac gactccaaaa ttaagaaggt agcaaatata ttcctatgtt cattgtccac
781 attattcacc agacccataa aagacctcat aggaaaaatt aaaccattga acatattgaa
841 tatcctggca acgtgtgact ggacttttgc cggaatagtg gaatctctga tattgtttgc
901 tgaactcttc ggagttttct ggacaccccc agatgtgtct gctatgatcg ctcccttact
961 cggggactac gagttacaag ggccagaaga cctcgccgtt gaactcgtac ctgtagtaat
1021 gggggggatt ggtttggtgt tgggattcac caaagagaaa attggcaaaa tgttgtcctc
1081 agcagcatca acactcaggg cttgcaaaga tcttggtgcc tatggcttag agatactcaa
1141 attggtcatg aagtggttct tcccaaagaa agaggaggcc aatgagctag ctatggtgag
1201 ggccatagag gatgctgtat tagaccttga ggcaatagaa aataaccaca tgacaaccct
1261 gttgaaagac aaagacagct tagcaacata catgaaaaca ctggacatgg aggaggagaa
1321 agccaggagg ttgtccacaa aatctgcatc ccctgacata gttgggacaa tcaatgccct
1381 gctggctcgg atagcagcgg ccaggtcatt agtccacagg gccaaggaag agctatctag
1441 taggataagg ccagtagttg ttatgatatc tggcaagcca ggaataggca aaactcatct
1501 ggccagggag gtggcaagaa aggtggcatc cactctcaca ggggatcaaa gagtcggact
1561 cataccacga aacggtgtgg accattggga tgcatacaaa ggtgagagag tcgtgctgtg
1621 ggacgactat ggcatgagta accctattca tgatgctctt cgcatacaag aattggctga
1681 tacgtgtccc cttaccttaa attgtgacag aattgaaaat aagggaaaag tttttgacag
1741 tgaagtcata ataattacaa caaaccttgc caatccagcc ccacttgatt atgtcaactt
1801 cgaggcctgt tccaggagaa ttgatttcct ggtgtacgct gaggcaccag aagtagaaaa
1861 ggcaaaacgg gactttcctg gtcagccaga tatgtggaag gacgccttca agccggactt
1921 ttcacacatc aagctacagc ttgcacccca gggcggcttt gacaagaatg gcaacacccc
1981 acatgggaaa ggagtgatga agaccctcac taccggttct ctgattgccc gtgcatcagg
2041 cctactgcat gagaggatgg atgaatttga actccaaggc cccacaatca ccaccttcaa
2101 tttcgaccga aacagaatca cggcattcag gcaattggct gcagaaaaca agtatggatt
2161 ggtggatacc atgaaagttg gcaatcaatt aaaaggagtg aaaaccatgg aagaactcaa
2221 acaagcaatc aggaatgtga ccatcaagag gtgccagatc atctacggtg gttccacgta
2281 tgaccttgaa tctgatggca agggcaaagt tttggtggaa aaggtcaaga acacctctgt
2341 acagaccaat aacgagttgg ctggggccct gcaccatctc aaacatgccc gaatcaggta
2401 ctatgtcaaa tgtgtgcaag aagcagtcta ttccatcata caaattgccg gcgctgcgtt
2461 tgtcaccacg cgcatcgcac gccgcatgaa catacaagaa ctctggtcaa agccacaact
2521 agatcaaaat gaatcagaga ctaaggaaga gacccccaag tcagaagatg acgagttcat
2581 catatcttct aaggacatca aggaggaagg aaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ccagcaaggg cttgagcgat gaggagtatg acgagtacaa
2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacagaga
2761 caggtactat gaggagctcg ccattgccaa ggccacggaa gaagacttct gtgaagagga
2821 ggagatcaaa atccgtcaga gaattttccg tcccaccagg aaacaaagaa aggaagagag
2881 ggccacatta gggctagtaa caggttcaga aatcagaaaa agaaaccctg atgacttcaa
2941 acccaaaggg aagttgtggg ccgatgacaa caggagtgtt gactacaatg agaaactgga
3001 ctttgaggcc cccccaagca tatggtctag gattgtgagc tttggctctg gctggggctt
3061 ctgggtgtca ccaagccttt tcataacatc aactcatgta atccccgcag gcataacaga
3121 agcatttgga gtccccatca accaaattca gatccacaaa tcaggcgaat tttgccgatt
3181 cagattccca aaaccaatta gaccagatgt gacaggaatg atcttggaag aaggtgcgcc
3241 tgagggcacc gtggcaactg tgctcatcaa acgccccacc ggagagctca tgcctcttgc
3301 agccagaatg ggaacacacg caaccatgaa aattcaaggc cgcatggttg gcggacagat
3361 gggtatgttg ctcactggat caaatgctaa aggaatggac ttgggaacaa ctcctggtga
3421 ctgtggctgt ccttacatct ataaaagggg caatgactat atagccattg gggtgcacac
3481 tgcagcagcc cgtggtggaa acactgtcat ctgtgccaca cagggaagtg agggtgaggc
3541 aactcttgag ggtggagatg acaaaggaac atactgtggg gcacccattc taggccctgg
3601 gggtgcacca aaattgagca ccaaaaccaa attctggagg tcatcgaaca cgccccttcc
3661 accagggaca tatgagcctg cctacctcgg tggccgtgat ccgcgtgtta agggtgggcc
3721 ttccctgcag caggtgatga gagaccagtt gaagccattc actgaaccca ggggcaaacc
3781 tccaagacca agtgtattgg aagcagccaa acaaaccatc atcaatgtcc tcgaacaaac
3841 cctggaccct ccacaaaaat ggacatacgc acaggcgtgc gcctcacttg acaaaaccac
3901 ctccagcggg cacccccatc acgtccgaaa gaatgagttc tggaatggtg agaccttcac
3961 tggtaaactg gcagaccaag catcaaaagc aaacctaatg tttgaggaag ggaaacacat
4021 gacaccagtg tacacagcag cactcaagga cgagctagtc aagactgaga aaatttatgg
4081 aaagatcaag aagagactgc tatggggctc cgacttgtcc accatgatcc ggtgcgctag
4141 gtcatttggt gggcttatgg acgagatgaa ggcacactgc atatcactcc cagtccgagt
4201 tggcatgaat atgaatgaag atggcccaat aatatttgag aaacactcta gatacaaata
4261 tcactatgat gcagactact ctcgttggga ttcaacacaa cagagggcag ttctagcagc
4321 agccttggaa atcatggtca gattctctgc agaaccacaa ttggcacaaa tagtcgctga
4381 ggatttgctg gcccctagtg tagtagatgt gggagacttt aaaatcacaa taaatgaagg
4441 gctcccttct ggtgtgccat gcacttctca atggaactcc atcgcacact ggctgctaac
4501 tctctgtgcc ttgtctgaag tcaccaaact atcccctgac attatacagg caaattccat
4561 gttctcattt tacggtgatg atgagattgt cagtaccgac ataaaattgg accctgaaca
4621 gttaaccgcc aaattgaagg agtacggcct gaaaccaacc cgcccagaca aaaccgaggg
4681 acccctgatt atcagtgaag atttgaacgg tctcactttc ctccgaagga cggtgactcg
4741 tgacccagct ggctggtttg gaaaactgga ccaaagctca attttgaggc agatgtactg
4801 gactagagga ccaaatcatg aagaccccaa tgagacaatg ataccccatt cccaaagacc
4861 catacagctc atggcactgc ttggtgaagc ctctcttcac ggaccctctt tctacagtaa
4921 aatcagtaaa ttggtcataa ctgaactcaa agaaggtggg atggactttt acgtgccaag
4981 gcaggaaccc atgttcaggt ggatgaggtt ttctgacttg agcacgtggg agggcgatcg
5041 caatctggct cccaattttg tgaatgaaga tggcgtcgaa tgacgccgct ccatctactg
5101 atggtgcagc cggcctcgtg ccagaaagta acaatgaggt catggctctt gaacccgtgg
5161 ctggtgccgc cttggcagcc ccggtcaccg gtcaaacaaa tattatagac ccttggatta
5221 gagcaaattt tgtccaggcc cccaatggtg aatttacagt ctctccccga aatgcccctg
5281 gtgaagtgct actgaatcta gagttgggtc cagaattaaa tccttatctg gcacatttag
5341 caagaatgta caatgggtat gccggtggga tggaggtgca ggtcatgttg gctgggaacg
5401 cgttcacagc cggcaagttg gtcttcgccg ccgtgccacc ccacttcccg gttgaaaacc
5461 ttagcccaca gcaaatcacc atgttccctc atgtgatcat agatgtgaga accttggaac
5521 ctgttttatt accactccct gatgttagga ataacttctt ccattacaac cagaaagatg
5581 atcccaagat gagaattgtg gctatgcttt atacccccct caggtctaat ggttcaggtg
5641 atgatgtgtt tacagtctct tgtagagtgt tgactagacc ttcccctgac tttgacttca
5701 catacctggt gccaccaaca gtggagtcta aaacaaagcc attcaccctc ccaatcctca
5761 cacttgggga actttccaat tctaggttcc cagtgtccat agaccagatg tacaccagcc
5821 ctaatgaaat tatatcagtg cagtgtcaaa atggtaggtg cacactggac ggggagctcc
5881 aagggacaac acaactccaa gttagtggca tttgtgcttt caaaggtgaa gttaccgccc
5941 acttgcatga taatgatcac ctatataatg tcaccatcac aaacttgaat gggtcccctt
6001 ttgatccctc cgaggatatc cctgcccctt tgggtgtgcc tgacttccag ggaagggttt
6061 ttggcatcat ctcccaaaga gataaataca atagtcctgg gcataatgaa ccagcaaaca
6121 ggggacacga cgctgtggtc cctacttaca cagcacagta cactccaaaa cttggacaaa
6181 ttcaaattgg cacatggcaa actgacgacc ttacagtcaa ccaaccagcc aaattcaccc
6241 cagttggact caatgacact gaacacttta accaatgggt ggtccctagg tatgctggtg
6301 ccctaaacct caatacaaac cttgcccctt ctgttgctcc agtatttcca ggagagcgcc
6361 tgctcttctt cagatcatac attcccctca agggcggtta tggaaaccca gccattgatt
6421 gcctactacc acaagagtgg gtgcaacact tctatcagga agcagcccct tcaatgagtg
6481 aggtggccct cgtcagatac atcaacccgg acactggtcg ggcactgttt gaggccaagc
6541 tccacagagc tggtttcatg acagtctcga gcaacaccag tgccccggtg gttgtgcctg
6601 ccaacgggta cttcagattt gattcttggg tgaaccaatt ttattctctc gcccccatgg
6661 gaactgggaa tgggcgtaga agggttcaat aatggctgga gcttttgtag ctggtcttgc
6721 aggggacgtg ctcagcaatg ggcttagttc attaatcaat gcaggtgcta atgcaataaa
6781 tcagagggca gaatttgatt ttaatcaaaa attgcagcaa aattctttta atcatgataa
6841 ggagatgttg caggctcaga ttcaggcaac taagcagctg caggcagaca tgatggctat
6901 aaaacaaggg gtcttgaccg ctggcggctt ttcccctgct gatgcagcca gaggtgctgt
6961 gaacgcgccc atgacacagg cgctggattg gaatggcaca aggtattggg caccaaactc
7021 catgaggacc acatcttatt ctggaaaatt cacatcaacc gccccagtga ggcaggctga
7081 cttccagcac acccaaagcc ggccttcgag tggctcctct gtgtcttcct ttgccactca
7141 gtcttcaagg ccaactttga ccacaaccac tggttcctca catggcacag cctcatcaaa
7201 ttcaactcgc agcacaagcc tctcccaatc aacggtctcc agagctacat ctaggactgg
7261 tgagtgggtt agagatcaaa atagaaattt ggaaccctac atgcatggtg ccttacagac
7321 agcctttgtc accccacctt ccagcagggc atctgacggg acagtctcaa ccgtccctaa
7381 aggtgttttg gactcctgga cacctgcgtt taacacccgc aggcagccgc tttttgcaca
7441 cctccgtaag aggggggagt cacaagctta gtgaaaaggt gaag
//