Typing tool
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Typing tool
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Complete norovirus genomes
| LC726087 | GII.2 | |
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| GII.P16 |
ORF1: 1..5079
ORF2: 5060..6688
ORF3: 6688..7467
LOCUS LC726087 7493 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/172F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726087
VERSION LC726087.1
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JOURNAL Unpublished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 7493)
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..7493
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/172F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-05"
gene <1..5079
/gene="POL"
CDS <1..5079
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDQ32377.1"
/translation="ATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRD
KPQKPPRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKGGISGLPELTTVPQPDVANTA
FSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMARVE
LTPLSLYWRVVYTPQYLISPETLRRLNGEVFPYTAFDNNCYAFCCWVLDLNDSWLSRR
MVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLN
ILNILATCDWTFAGVVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVEL
VPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEA
NELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASP
DIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVARKVA
STLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLN
CDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDF
PGQPDMWKDTFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLH
ERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQ
AIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIR
YYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESETKGEAPKLEDD
EFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEY
LQDRDRYYEELAIAKATEEDFCEEEEIRIRQRIFRPTRKQRKEERATLGLVTGSEIRK
RNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITST
HVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLI
KRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIY
KRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPKL
STKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRP
SVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGETFTG
KLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCA
RSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAV
LAAALEIMVRFSAEPQLTQIVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIA
HWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPT
RPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPSE
TMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMR
FSDLSTWEGDRNLAPNFVNEDGVE"
gene 5060..6688
/gene="VP1"
CDS 5060..6688
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32378.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6688..7467
/gene="VP2"
CDS 6688..7467
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32379.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLIAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTATT
GSSYGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gctaccgttg ccgttgcttg caacaacaac aacgacaaag aaaaatcttc aggtgaaggc
61 ttattcacaa atatgtcttc caccttaaag aaagccctcg gggctaggcc caaacagcct
121 gccccgagag acaaaccaca aaaacctcca agaccaccaa ctcccgagtt ggtcaagagg
181 ataccccctc ccccacctaa cggcgaagaa gaagaagaac cagtcattag gtatgaggtc
241 aagggtggga tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac
301 acagcgttca gtgttccacc actgagcttg agagaaaaca gggaggccaa ggagccgcta
361 acaggggcaa tattagagat gtgggatgga gagatatacc actatggcct gtacgtggag
421 aaaggcttag tgttgggtgt acacaaacca cctgcagcca taagcatggc aagagtggag
481 ctgacgccgt tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct
541 gaaaccctca ggaggctcaa cggagaggtg ttcccttaca ccgcctttga caacaactgc
601 tatgcttttt gctgctgggt gttagacctc aatgactcat ggcttagcag gaggatggta
661 caaagaacaa cgggcttctt cagaccttac caagagtgga acagaaaacc cctgcctacc
721 atggatgact ccaaaattaa gaaggtagca aatatattcc tatgttcatt gtccacatta
781 ttcaccaggc ccataaaaga ccttatagga aaaattaaac cattgaacat attgaatatc
841 ctggcaacgt gtgactggac ttttgccgga gtagtggagt ctctgatatt gcttgctgaa
901 ctcttcggag ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg
961 gactacgagc tgcaagggcc agaagacctc gccgttgaac tcgtgcccgt ggtaatgggg
1021 gggattggtt tggtgttggg attcaccaaa gagaaaattg gcaaaatgtt gtcctcagca
1081 gcatcaacac tcagggcttg caaagatctt ggtgcctatg gtttagagat actcaaattg
1141 gtcatgaagt ggttcttccc aaagaaagag gaggccaatg agctagctat ggtgagggcc
1201 atagaggatg ctgtattaga ccttgaggca atagaaaata accacatgac aaccctgttg
1261 aaagacaaag acagcttagc aacatatatg aaaacactgg acatggagga ggagaaagcc
1321 aggaggttgt ccacaaaatc tgcatcccct gacatagttg ggacaatcaa cgccctgctg
1381 gctcgaatag cagcggccag gtcattagtc cacagggcca aggaagagct atctagtagg
1441 ataaggccag tagttgttat gatatctggt aagccaggaa taggcaaaac tcatctggcc
1501 agagaggtgg caagaaaggt ggcatctact ctcacaggag atcaaagagt cggactcata
1561 ccacgaaacg gtgtggacca ttgggatgca tacaaaggtg agagagtcgt gctgtgggac
1621 gactatggca tgagcaaccc tattcatgat gctcttcgca tacaagaatt ggctgatacg
1681 tgtcccctta ccttaaattg tgacagaatt gaaaataagg gaaaggtttt tgacagtgaa
1741 gtcataataa ttacaacaaa ccttgccaat ccagccccac ttgattatgt caactttgag
1801 gcctgttcca gaagaattga tttcctggtg tacgctgagg caccagaagt agaaaaggca
1861 aaacgggact ttcctggcca gccagatatg tggaaggaca ccttcaagcc ggacttttca
1921 cacatcaagc tacagcttgc accccagggc ggctttgaca agaatggcaa caccccacat
1981 gggaaaggag tgatgaagac cctcactacc ggttctctga ttgcccgtgc atcaggccta
2041 ctgcatgaga ggatggatga atttgaactc caaggcccca caatcaccac ctttaatttc
2101 gaccgaaaca gaatcacggc attcagacaa ttggctgcag aaaacaagta tggattggtg
2161 gataccatga aagttggcaa ccaattaaaa ggagtgaaaa ccatggaaga actcaaacaa
2221 gcaatcagga atgtgaccat caagaggtgc cagatcatct acggtggttc cacgtatgac
2281 cttgaatctg atggcaaggg caaagttttg gtggaaaagg tcaagaacac ctctgtacag
2341 accaataacg agttggctgg ggccctgcac catctcaaac atgcccgaat caggtactat
2401 gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa ttgccggcgc tgcgtttgtc
2461 accacgcgca tcgcacgccg catgaacata caagaactct ggtcgaagcc acaactggat
2521 caaaatgaat cagagactaa gggagaggcc cccaagttag aagatgacga gttcatcata
2581 tcttctaagg acatcaagga ggaaggaaag aagggcaaaa acaaaactgg ccgtggcaag
2641 aaacacactg cattctccag caagggcttg agcgatgagg agtatgacga gtacaagaga
2701 ataagagaag agagaaatgg gaagtactct atagaggagt atcttcaaga cagagacagg
2761 tactatgagg agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag
2821 atcagaatcc gtcagagaat tttccgtccc accaggaaac aaagaaagga agagagggcc
2881 acattagggc tagtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc
2941 aaagggaagc tgtgggccga tgacaacagg agtgttgact acaatgagaa actggacttt
3001 gaggcccccc caagtatatg gtctaggatt gtgagctttg gctctggctg gggcttctgg
3061 gtgtcaccaa gccttttcat aacatcaact catgtaatcc ccgcaggcat aacagaagca
3121 tttggagtct ccatcaaaca aattcagatc cacaaatcag gcgaattttg ccgattcaga
3181 ttcccaaaac caattagacc agatgtgaca ggaatgatct tggaagaagg tgcgcctgag
3241 ggcaccgtgg caactgtgct catcaaacgc cccaccgggg agctcatgcc tcttgcagcc
3301 agaatgggaa cacacgcaac catgaaaatt caaggccgca tggttggcgg acagatgggc
3361 atgttgctca ctggatcaaa tgctaaagga atggacttgg gaacaacccc tggtgactgt
3421 ggctgtcctt acatctataa aaggggcaat gactatatag tcattggggt gcatactgca
3481 gcagcccgtg gtggaaatac tgtcatctgt gccacacagg gaagtgaggg tgaggcaact
3541 cttgagggtg gagatgacaa aggaacatac tgtggggcac ccattctagg ccctgggggt
3601 gcaccaaaat tgagcaccaa aaccaaattt tggaggtcat cgaacacgcc ccttccacca
3661 ggaacatatg agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccttcc
3721 ctgcagcagg tgatgagaga ccagttgaag ccattcactg aacccagggg caaacctcca
3781 agaccaagtg tattggaagc agccaaacaa accatcatca atgtcctcga acaaaccctg
3841 gaccctccac aaaaatggac atacgcacag gcgtgcgcct cacttgacaa aactacctcc
3901 agtgggcacc cccatcacgt ccgaaagaat gaattctgga atggtgagac cttcactggt
3961 aaactggcag accaagcatc aaaagcaaac ctaatgtttg aggaagggaa acacatgaca
4021 ccagtgtaca cagcagcact caaggacgag ttagtcaaga ctgagaaaat ttatggaaag
4081 atcaagaaga gactgctctg gggctctgac ttgtccacca tgatccggtg cgctaggtca
4141 tttggtgggc ttatggacga gatgaaggca cactgcatat cactcccagt ccgagttggc
4201 atgaatatga atgaagatgg cccaataata tttgagaaac attccagata caaatatcac
4261 tatgatgcag actactctcg ttgggattca acacaacaga gggcagttct agcagcagcc
4321 ttggaaatca tggtcagatt ctctgcagaa ccacaattga cacaaatagt cgctgaggat
4381 ctgctggccc ctagtgtagt agatgtagga gactttaaaa tcacaataaa tgaagggctc
4441 ccttctggtg tgccatgcac ttctcaatgg aactccatcg cacactggtt gctaactctc
4501 tgtgccttgt ctgaagtcac caaactatcc cctgacatta tacaggcaaa ttccatgttc
4561 tcattttacg gtgatgatga gattgtcagt accgacataa aattggaccc tgaacagtta
4621 accgccaaat tgaaggagta cggcctgaaa ccaacccgcc cagacaaaac cgagggaccc
4681 ctgattatca gtgaagattt gaacggtctc actttcctcc gaaggacggt gactcgtgac
4741 ccagctggct ggtttggaaa actggatcaa agctcaattt tgaggcagat gtactggact
4801 agaggaccaa atcatgagga ccccagtgag acaatgatac cccattccca aagacccata
4861 cagctcatgg cactgcttgg tgaagcctcc cttcacggac cctctttcta cagtaaaatc
4921 agtaaattgg tcataactga actcaaagaa ggtgggatgg acttttacgt gccaaggcag
4981 gaacccatgt tcaggtggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat
5041 ctggctccca attttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg
5101 tgcagccggc ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac ccgtggctgg
5161 tgccgccttg gcagccccgg tcaccggtca aacaaatatt atagaccctt ggattagagc
5221 aaattttgtc caggccccca atggtgaatt tacagtctct ccccgaaatg cccctggtga
5281 agtgctactg aatctagagt tgggtccaga attgaatcct tatctggcac atttagcaag
5341 aatgtataat gggtatgccg gtgggatgga ggtgcaggtc atgttggctg ggaacgcgtt
5401 cacagccggc aagttggtct tcgccgccgt gccaccccac ttcccgattg aaaaccttag
5461 cccacagcaa atcaccatgt tccctcatgt gatcatagat gtgagaacct tggaacctgt
5521 tttattacca ctccctgatg ttaggaacaa cttcttccat tataaccaga aagatgatcc
5581 caagatgaga attgtggcta tgctttatac ccccctcagg tctaatggtt caggtgatga
5641 tgtgtttaca gtctcctgta gggtgttgac tagaccttcc cctgactttg acttcacata
5701 cctggtgcca ccaacagtgg agtctaaaac aaagccattc accctcccaa tcctcacact
5761 tggggaactt tccaattcta ggttcccagt gtccatagac cagatgtaca ccagccctaa
5821 tgaaattata tcagtgcagt gtcaaaatgg taggtgcaca ctggacgggg agctccaagg
5881 gacaacacaa ctccaagtca gtggcatttg tgcttttaaa ggtgaagtaa ccgcccactt
5941 gcatgacaat gatcacctat ataatgtcac catcacaaac ttgaatgggt ccccttttga
6001 tccctccgag gatatccctg cccctttggg tgtgcctgac ttccagggaa gggtttttgg
6061 tatcatctcc caaagagata aacataatag tcctgggcat aatgaaccag caaacagggg
6121 acacgacgct gtggtcccta cttacacagc acagtacact ccaaaacttg gacaaattca
6181 aattggcaca tggcaaactg acgaccttac agtcaaccag ccagtcaaat tcaccccagt
6241 tggactcaat gacactgaac actttaacca atgggtggtc cctaggtatg ctggtgctct
6301 aaatctcaat acaaaccttg ccccttctgt tgctccagtg tttccaggag agcgcctgct
6361 cttcttcaga tcatacattc ccctcaaggg cggttatgga aacccagcca ttgattgctt
6421 actaccacaa gagtgggtgc agcacttcta tcaggaagca gccccttcaa tgagtgaggt
6481 ggccctcgtc agatacatca acccggacac tggtcgggca ctgtttgagg ccaagctcca
6541 cagagctggt ttcatgacag tctcgagcaa caccagtgcc ccggtggttg tgcctgccaa
6601 cgggtacttc agatttgatt cttgggtgaa ccaattttac tctctcgccc ccatgggaac
6661 tgggaatggg cgtagaaggg ttcaataatg gctggagctt ttgtagctgg tcttgcaggg
6721 gacgtgctca gcaatgggct tagttcatta atcaatgcag gtgctaatgc aataaatcag
6781 agggctgaat ttgattttaa tcaaaaattg cagcaaaatt cttttaatca tgataaggag
6841 atgttgcagg ctcagattca ggcaactaag cagctgcagg cagacatgat ggctataaaa
6901 caaggggtct tgatcgctgg cggcttttcc cctgctgatg cagccagagg tgctgtgaac
6961 gcgcccatga cacaggcgct ggattggaat ggcacaaggt attgggcacc aaactccatg
7021 aggaccacat cttattctgg aaagttcaca tcaaccgccc cagtgaggca ggctgacttc
7081 cagcacaccc aaagccggcc ttcgagtggc tcctctgtat cttcctttgc cactcagtct
7141 tcaaggccaa ctctgaccgc aaccactggt tcctcatatg gcacagcctc atcaaattca
7201 actcgcagta caagcctctc ccaatcaacg gtctccagag ctacatctag gactggtgag
7261 tgggttagag atcaaaatag aaatttggaa ccctacatgc atggtgcctt acagacagcc
7321 tttgtcaccc caccttccag cagggcatct gacgggacag tctcaaccgt ccctaaaggt
7381 gttttggact cctggacacc tgcgttcaac acccgcaggc aaccgctttt tgcacacctc
7441 cgtaagaggg gggagtcaca agcttagtga aaaggtgaaa atttatttag gaa
//