Typing tool
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Typing tool
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Complete norovirus genomes
| LC726084 | GII.2 | |
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| GII.P16 |
ORF1: 1..4959
ORF2: 4940..6568
ORF3: 6568..7347
LOCUS LC726084 7364 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/788F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726084
VERSION LC726084.1
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JOURNAL Unpublished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 7364)
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..7364
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/788F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-11"
gene <1..4959
/gene="POL"
CDS <1..4959
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDQ32368.1"
/translation="APRDKPQKPSRPPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGI
SGLPELTTVPQPDVANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKG
LVLGVHKPPAAISMARVELTPLSLYWRVVYTPQYLISPEALRRLNGEAFPYTAFDNNC
YAFCCWVLDLNDSWLSRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLS
TLFTRPIKDLIGKIKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIA
PLLGDYELQGPEDIAVELVPVVMGGIGLVLGFTKEKIGKVLSSAASTLRACRDLGAYG
LEILKLVMKWFFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKT
LDMEEEKARRLSTKSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISG
KPGIGKTHLAREVARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPI
HDALRLQELADTCPLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRI
DFLVYADAPEVEKAKRDFPGQPDMWKDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGV
MKTLTTGSLIARASGLLHERMDEFELQGPTITTFNFDRNKITAFRQLAAENKYGLVDT
MKVGNQLKGVKTMEELKQAIRNVTIKRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQ
TNNELAGALHHLKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQ
LDQNESETKEEAPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYD
EYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQ
RKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVS
FGSGWGFWVSPSLFITSTHVIPAGITEAFGVSIKQIQIHKSGEFCRFRFPKPIRPDVT
GMILEEGAPEGTVATVLVKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNA
KGMDLGTTPGDCGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDD
KGTYCGAPILGPGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQV
MRDQLKPFTEPRGKPPRPGVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSG
HPHHVRKNEFWNGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGK
IKKRLLWGSDLSTMIRCARSFGGLMDEMKTHCISLPVRVGMNMNEDGPIIFEKHSRYK
YHYDADYSRWDSTQQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKITI
NEGLPSGVPCTSQWNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIK
LDPEQLTAKLKEYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSS
ILRQMYWTRGPNHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKE
GGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 4940..6568
/gene="VP1"
CDS 4940..6568
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32369.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6568..7347
/gene="VP2"
CDS 6568..7347
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32370.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFVTQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQV"
ORIGIN
1 gccccgagag acaaaccaca aaagccctca agaccaccaa ctcccgagtt ggtcaagagg
61 ataccccctc ctccacctaa tggcgaagaa gaagaagaac cagtcattag gtatgaggtt
121 aagagtggga tctctggcct gcccgagctc acaacagtcc cccaaccgga cgtggccaac
181 acagcattca gtgttccacc actgagcttg agagaaaaca gggaggccaa ggagccgcta
241 acgggggcaa tattagagat gtgggatgga gagatatatc actatggcct gtacgtggag
301 aaaggcttag tgttgggtgt gcacaaacca cctgcagcca taagcatggc aagagtggag
361 ctgacgccgt tgtcattgta ctggcgtgtg gtgtacactc cccaatacct catctcccct
421 gaagccctca ggaggctcaa cggagaggca ttcccttaca ccgcctttga caacaactgc
481 tatgcctttt gctgctgggt gttagacctc aatgactcat ggcttagtag gaggatggta
541 caaagaacaa cgggcttctt cagaccttac caagagtgga acagaaaacc cctgcctacc
601 atggatgact ccaaaattaa gaaggtagca aatatattcc tatgttcatt gtccacattg
661 ttcaccagac ccataaaaga cctcatagga aaaattaaac cattgaacat attgaatatc
721 ctggcaacgt gtgactggac ttttgccgga atagtggagt ctctgatact acttgctgaa
781 ctcttcggag ttttctggac acccccagat gtgtctgcta tgatcgctcc cttactcggg
841 gactacgagt tgcaagggcc agaagacatc gccgttgaac tcgtacctgt ggtaatgggg
901 gggattggtt tggtgttggg attcactaaa gagaaaattg gcaaagtgtt gtcctcagca
961 gcatcaacac tcagggcttg cagagatctt ggtgcctatg gcttagagat actcaaattg
1021 gttatgaagt ggttcttccc aaagaaagag gaggccaatg agttagctat ggtgagggcc
1081 atagaggatg ctgtactaga ccttgaggca atagaaaata accacatgac aaccctgttg
1141 aaagacaaag atagcttagc aacatacatg aaaacactgg acatggagga ggagaaagcc
1201 aggagattgt ccacaaaatc tgcatcccct gatatagttg ggacaatcaa cgccctgctg
1261 gctcgaatag cagcggccag gtcattagtc cacagggcca aagaagagct atctagcagg
1321 ataaggccag tagttgttat gatatctggc aaaccaggaa taggcaaaac tcatctggcc
1381 agggaggtgg caagaaaggt ggcatccact ctcacagggg atcaaagagt cggactcata
1441 ccacgaaacg gtgtggacca ttgggatgca tataaaggtg agagagtcgt gctgtgggac
1501 gactatggca tgagtaaccc tattcatgac gctcttcgct tacaagaatt ggctgatacg
1561 tgtcccctta ccttaaattg tgacagaatc gaaaataagg gaaaagtttt tgacagtgaa
1621 gtcataataa ttacaacaaa ccttgccaat ccagccccac ttgattatgt caactttgag
1681 gcctgttcca ggaggattga tttcctggtg tatgctgatg caccagaagt agaaaaggca
1741 aaacgggact tccctggtca accagatatg tggaaggacg ctttcaagcc ggacttttca
1801 cacatcaagc tacagcttgc accccaaggc ggctttgaca agaatggcaa caccccacat
1861 gggaaaggag tgatgaagac cctcactacc ggttctctga ttgcccgtgc atcaggccta
1921 ctgcatgaga ggatggatga atttgaactc caaggtccca caatcaccac cttcaatttc
1981 gaccggaaca aaatcacggc attcagacaa ttggctgcag aaaacaagta tggattggtg
2041 gataccatga aagttggcaa tcaattaaaa ggagtgaaaa ccatggaaga actcaaacaa
2101 gcaatcagga atgtgaccat caagaggtgc cagatcatct acggtggttc cacgtatgac
2161 ctcgaatctg acggcaaggg caaagttttg gtggaaaagg tcaagaacac ctctgtacag
2221 accaacaacg agttggctgg ggctctgcac catctcaaac atgcccgaat caggtactat
2281 gtcaaatgtg tgcaagaagc agtctattcc atcatacaaa tcgccggtgc tgcgtttgtc
2341 accacgcgca ttgcacgccg catgaacata caagaactct ggtcgaagcc acaactagat
2401 caaaatgaat cagagactaa ggaagaggcc cccaagtcag aagatgacga gttcattata
2461 tcttctaagg acatcaagga ggaaggaaag aagggcaaaa acaaaactgg ccgtggcaag
2521 aagcacactg cattctccag caagggcttg agcgatgagg agtatgacga gtacaagagg
2581 ataagagaag agagaaatgg gaagtactct atagaggagt atcttcaaga cagagacaga
2641 tactatgagg agctcgccat tgccaaggcc acggaagaag acttctgtga agaggaggag
2701 atcaaaatcc gtcagagaat tttccgtccc accaggaaac aaagaaagga agagagggcc
2761 acattagggc tagtaacagg ttcagaaatc agaaaaagaa accctgatga cttcaaaccc
2821 aaagggaagc tgtgggccga tgacaacagg agtgttgact acaatgagaa actggacttt
2881 gaggcccccc caagcatatg gtctaggatt gtgagctttg gttctggctg gggcttctgg
2941 gtgtcaccaa gccttttcat aacatcgact catgtaatcc ccgcaggcat aacagaagca
3001 tttggagttt ccatcaaaca aatccagatc cacaaatcag gcgaattttg ccgatttaga
3061 ttcccaaaac caattagacc agatgtgaca ggaatgatct tggaagaggg tgcgcctgag
3121 ggcactgtgg caactgtgct tgtcaaacgc cccaccggag agctcatgcc tctcgcagcc
3181 agaatgggaa cacacgcaac catgaaaatt caaggccgca tggttggcgg acagatgggt
3241 atgttgctca ctggatcaaa tgctaaaggg atggacttgg gaacaactcc tggtgattgt
3301 ggctgtcctt acatctataa aaggggcaat gactatatag tcattggggt gcacactgca
3361 gcagcccgtg gtggaaacac tgtcatctgt gccacacagg gaagtgaggg tgaggcaact
3421 cttgagggtg gagatgacaa aggaacatac tgtggggcac ccattctagg ccctgggggt
3481 gcaccaaaat tgagcaccaa aaccaaattt tggagatcat cgaacacgcc ccttccacca
3541 gggacatatg agcctgccta cctcggtggc cgtgatccgc gtgttaaggg tgggccttcc
3601 ctgcagcagg taatgagaga ccagttgaag ccattcactg aacccagggg caaaccccca
3661 agaccaggtg tattggaagc agccaaacaa accatcatca atgtcctcga acaaaccctg
3721 gaccctccac aaaaatggac atacgcacag gcgtgtgcct cacttgacaa aaccacctcc
3781 agcgggcacc cccatcacgt ccgaaagaat gaattctgga atggtgagac cttcactggt
3841 aaactggcag accaagcatc aaaagcaaac ctaatgtttg aggaagggaa acacatgaca
3901 ccagtgtata cagcagcact caaggacgag ctagtcaaga ctgagaaagt ctatggaaag
3961 atcaagaaga gactgctctg gggctctgac ttgtccacca tgatccggtg tgctaggtca
4021 tttggtgggc ttatggacga gatgaagaca cactgcatat cactcccagt ccgagttggc
4081 atgaatatga atgaagatgg cccaataata tttgagaaac attccagata caaatatcac
4141 tatgatgcag actactctcg ttgggattca acacaacaga gggcagtact agcagcagcc
4201 ttggaaatca tggtcagatt ctctgcagaa ccacaattgg cgcaaatagt cgctgaggat
4261 ctgctggccc ctagtgtagt ggatgtagga gactttaaaa ttacaataaa tgaagggctc
4321 ccttctggtg tgccatgcac ctctcaatgg aactccatcg cacactggct actaactctt
4381 tgtgccttgt ctgaagtcac caaactgtcc cctgatattg tacaggcaaa ttccatgttc
4441 tcattttacg gtgatgacga gattgtcagc accgacataa aattggaccc tgaacagtta
4501 accgccaaat tgaaggagta cggcctaaaa ccaacccgcc cagacaaaac cgagggaccc
4561 ctgattatca gtgaagattt gaacggtctc actttcctcc gaaggacggt gactcgtgac
4621 ccagctggct ggtttggaaa actggaccaa agctcaattt tgaggcagat gtactggact
4681 agaggaccaa atcatgaaga ccccaatgag acaatgatac cccattctca aagacccata
4741 cagctcatgg cactgcttgg tgaagcctct cttcacggac cctctttcta cagtaaaatc
4801 agtaaattgg tcataactga actcaaagaa ggtggaatgg acttttacgt gccaaggcag
4861 gaacccatgt tcaggtggat gaggttttct gacttgagca cgtgggaggg cgatcgcaat
4921 ctggctccca attttgtgaa tgaagatggc gtcgaatgac gccgctccat ctactgatgg
4981 tgcagccggc ctcgtgccag aaagtaacaa tgaggtcatg gctcttgaac ccgtggctgg
5041 tgccgccttg gcagccccgg tcaccggtca aacaaatatt atagaccctt ggattagagc
5101 aaattttgtc caggccccca atggtgaatt tacagtctcc ccccgaaatg cccctggtga
5161 agtgctactg aatctagagt tgggtccaga attaaatcct tatctggcac atttagcaag
5221 aatgtacaat gggtatgccg gtgggatgga ggtgcaggtc atgttggctg ggaacgcgtt
5281 cacagccggc aagttggtct tcgccgccgt gccaccccac ttcccgattg aaaaccttag
5341 cccacagcaa atcaccatgt tccctcatgt gatcatagat gtgagaaccc tggaacctgt
5401 tttattacca ctccctgatg ttaggaacaa cttctttcat tataaccaga aagatgatcc
5461 caagatgaga attgtggcca tgctttatac ccccctcagg tctaatggtt caggtgatga
5521 tgtgttcaca gtctcctgta gagtgttgac tagaccttcc cctgactttg acttcacata
5581 cctggtgcca ccaacagtgg agtctaaaac aaagccattc accctcccaa tcctcacact
5641 tggggaactt tccaattcta ggttcccagt gtccatagac cagatgtaca ccagccctaa
5701 tgaaattata tcagtgcagt gtcaaaatgg taggtgcaca ctggacgggg agctccaagg
5761 gacaacacaa ctccaagtca gtggcatttg tgcttttaaa ggtgaagtga ccgcccactt
5821 gcatgataat gatcacctat ataatgtcac catcacaaac ttgaatgggt ccccttttga
5881 tccctccgag gatatccctg cccctctggg tgtgcctgac ttccagggaa gggtttttgg
5941 tatcatctcc caaagagata aacacaatag tcctgggcat aatgaaccag caaacagggg
6001 acacgacgct gtggtcccta cttacacagc acagtacact ccaaaacttg gacaaattca
6061 aattggcaca tggcaaactg acgaccttac agtcaaccaa ccagtcaaat tcaccccagt
6121 tggactcaat gacactgaac actttaacca atgggtggtc cctaggtatg ctggtgccct
6181 aaacctcaat acaaaccttg ccccttctgt tgctccagtg tttccaggag agcgcctgct
6241 cttcttcaga tcatacattc ccctcaaggg cggttatgga aacccagcca ttgattgcct
6301 actaccacaa gagtgggtgc aacacttcta ccaggaagca gccccttcaa tgagtgaggt
6361 ggccctcgtc aggtacatca acccggacac tggtcgggca ctgtttgagg ccaagctcca
6421 cagagctggt ttcatgacag tctcgagcaa caccagtgcc ccggtggttg tgcctgccaa
6481 cgggtacttc agatttgatt cctgggtaaa ccaattttat tctctcgccc ccatgggaac
6541 tgggaatggg cgtagaaggg ttcaataatg gctggagctt ttgtagctgg tcttgcaggg
6601 gacgtgctca gtaatgggct tagttcatta atcaatgcag gtgctaatgc aataaatcag
6661 agggcagaat ttgattttaa tcagaagttg cagcaaaatt cttttaatca tgataaggag
6721 atgttgcagg ctcagattca ggcaactaag cagctgcagg cagacatgat ggctataaaa
6781 caaggggtct tgaccgctgg cggcttttcc cctgctgatg cagccagagg tgctgtgaac
6841 gcgcccatga cacaggcgct ggattggaat ggcacaaggt attgggcacc aaactccatg
6901 aggaccacat cttactctgg aaaattcaca tcaaccgccc cagtgaggca ggctgacttt
6961 cagcacaccc aaagccggcc ttcgagtggc tcctctgtgt cttcctttgt cactcagtct
7021 tcaaggccaa ctctgaccac aaccactggt tcctcacatg gcacagcctc atcaaattca
7081 actcgcagca caagcctctc ccaatcaacg gtctccagag ctacatctag gactggtgag
7141 tgggttagag atcaaaatag aaacttggaa ccctacatgc atggtgcctt acagacagcc
7201 tttgtcaccc caccttccag cagggcatct gacgggacag tctcaaccgt ccctaaaggt
7261 gttttggact cctggacacc tgcgtttaac acccgcaggc agccgctttt tgcacacctc
7321 cgtaagaggg gggagtcaca agtttagtga aaaggtgaaa attt
//