Typing tool
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Typing tool
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Complete norovirus genomes
| LC726080 | GII.2 | |
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| GII.P16 |
ORF1: 1..5058
ORF2: 5039..6667
ORF3: 6667..7439
LOCUS LC726080 7439 bp RNA linear VRL 26-AUG-2022
DEFINITION Norovirus GII.2 Hu/GII.2[P16]/166F/Tokyo/2021/Japan POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, partial and complete cds.
ACCESSION LC726080
VERSION LC726080.1
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JOURNAL Unpublished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 7439)
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..7439
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/strain="Hu/GII.2[P16]/166F/Tokyo/2021/Japan"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan:Tokyo"
/collection_date="2021-05"
gene <1..5058
/gene="POL"
CDS <1..5058
/gene="POL"
/note="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BDQ32356.1"
/translation="NNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPAPRDKPQNPPR
PPTPELVKRIPPPPPNGEEEEEPVIRYEVKSGISGLPELTTVPQPDVANTAFSVPPLS
LRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISKARVELTPLSLY
WRVVYTPQYLIPPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTG
FFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKIKPLNILNILAT
CDWTFAGIVESLILFAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVVMGG
IGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVR
AIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKSASPDIVGTIN
ALLARIAAARSLVHRAKEELSGRIRPVVVMISGKPGIGKTHLAREVARKVASTLTGDQ
RVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENK
GKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMW
KDAFKPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERMDEFE
LQGPTITTFNFDRNRITAFRQLAAENKYGLVDTMKVGNQLKGVKTMEELKQAIRNMTI
KRCQIIYGGSTYDLESDGKGKVLVEKVKNTSVQTNNELAGALHHLKHARIRYYVKCVQ
EAVYSIIQIAGAAFVTTRIARRMNIQELWSKPQLDQNESEIKEEAPKSEDDEFIISSK
DIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRY
YEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKRNPDDFK
PKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTHVIPAGI
TEAFGVPIKQVQIHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIKRPTGEL
MPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYKRGNDYI
VIGVHTAAARGGNTVICATQGNEGEATLEGGDDKGTYCGAPILGPGGAPKLSTKTKFW
RSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPSVLEAAK
QTIINVLEQTLDPPQKWTYVQACASLDKTTSSGHPHHVRKNEFWNGETFTGKLADQAS
KANLMFEEGKHMTPVYTAALKDELVKTEKIYGKIKKRLLWGSDLSTMIRCARSFGGLM
DEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLAAALEI
MVRFSAEPQLAQVVAEDLLAPSVVDVGDFKITINEGLPSGVPCTSQWNSIAHWLLTLC
ALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEQLTAKLKEYGLKPTRPDKTEG
PLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNETMIPHSQ
RPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRFSDLSTW
EGDRNLAPNFVNEDGVE"
gene 5039..6667
/gene="VP1"
CDS 5039..6667
/gene="VP1"
/note="ORF2"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BDQ32357.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6667..>7439
/gene="VP2"
CDS 6667..>7439
/gene="VP2"
/note="ORF3"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BDQ32358.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGIASSNLTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGES"
ORIGIN
1 aacaacaaca acgacaaaga aaaatcttca ggtgaaggct tattcacaaa tatgtcttcc
61 accttaaaga aagccctcgg ggctaggcct aagcagcctg ccccgagaga caaaccacaa
121 aatcccccaa ggccaccaac tcccgagttg gtcaagagga taccccctcc cccacctaac
181 ggcgaagaag aagaagaacc agtcattagg tatgaggtca agagtgggat ctctggcctg
241 cccgagctca caacagtccc ccaaccggac gtggccaaca cagcatttag tgttccacca
301 ctgagcttga gagaaaacag ggaggccaag gagccgctaa caggggcaat attagagatg
361 tgggatggag agatatacca ctatggcctg tacgtggaga aaggcttagt gttgggtgtg
421 cacaaaccac ctgcagccat aagcaaggca agagtggagc tgacgccgtt gtcattgtac
481 tggcgtgtgg tgtacactcc ccagtacctc atcccccctg aaaccctcag gaggctcaac
541 ggagaggcat tcccttacac cgcctttgac aacaactgct atgccttttg ctgctgggtg
601 ttagacctca atgactcgtg gcttagcagg aggatgatac aaaggacaac gggcttcttt
661 agaccttacc aagagtggaa cagaaaaccc ctgcctacca tggatgactc caaaattaag
721 aaggtagcaa atatattcct atgttcattg tccacattat tcaccaggcc cataaaagac
781 ctcataggaa aaatcaaacc attgaacata ttgaatatcc tggcaacgtg tgactggact
841 tttgccggaa tagtggagtc tctgatatta tttgctgaac tcttcggagt tttctggaca
901 cccccagatg tgtctgctat gatcgctccc ttactcgggg actacgagtt gcaagggcca
961 gaagacctcg ccgttgaact cgtgcctgtg gtaatggggg ggattggttt ggtgttggga
1021 ttcaccaaag agaaaattgg caaaatgttg tcctcagcag catcaacact cagggcttgc
1081 aaagatcttg gtgcctatgg cttggagata ctcaaattgg tcatgaagtg gttcttccca
1141 aagaaagaag aggccaatga gctagctatg gtgagggcca tagaggatgc tgtattagac
1201 cttgaggcaa tagaaaataa ccacatgaca accctgttga aagacaaaga cagcttagca
1261 acatacatga aaacactgga tatggaggag gagaaagcca ggaggttgtc cacaaaatct
1321 gcatcccctg acatagttgg gacaattaac gccctgctgg ctcgaatagc agcggccagg
1381 tcattagtcc acagggccaa ggaagagcta tctggtagga taaggccagt agttgtcatg
1441 atatctggca agccaggaat aggcaaaacc catctggcca gggaggtggc aagaaaggtg
1501 gcatccactc tcacaggaga tcaaagagtc ggactcatac cacgaaacgg tgtggaccat
1561 tgggatgcat acaaaggtga gagggtcgtg ctgtgggacg actatggcat gagtaaccct
1621 attcatgatg ctcttcgctt acaagaattg gctgatacgt gtcccctcac cttaaattgt
1681 gacagaattg aaaataaggg gaaagttttt gacagtgaag tcataataat tacaacaaac
1741 cttgccaatc cagccccact tgattatgtc aactttgagg cctgttccag gagaattgat
1801 ttcctggtgt acgctgaggc accagaagta gaaaaggcaa aacgggactt tcctggtcag
1861 ccagatatgt ggaaggacgc cttcaagccg gacttttcac acatcaagct acagcttgca
1921 ccccagggcg gcttcgacaa gaatggcaac accccacatg ggaaaggagt gatgaagacc
1981 ctcactaccg gttctctgat tgcccgtgca tcaggcctac tgcatgagag gatggatgaa
2041 tttgaactcc aaggccccac aatcaccacc tttaatttcg accgaaacag aatcacggca
2101 ttcaggcaat tggctgcaga aaacaagtat ggattggtgg ataccatgaa agttggcaat
2161 caattaaaag gagtgaaaac catggaagaa ctcaaacaag caatcaggaa tatgaccatc
2221 aagaggtgcc agatcatcta cggcggttcc acgtatgacc ttgaatctga tggcaagggc
2281 aaagttttgg tggaaaaggt caagaacacc tctgtacaga ccaataacga gttggctggg
2341 gccctgcacc atctcaaaca tgcccgaatc aggtactatg tcaaatgtgt gcaagaagca
2401 gtctattcca tcatacaaat tgccggcgct gcgtttgtca ccacgcgcat cgcacgccgc
2461 atgaacatac aagaactctg gtcgaagcca caactagatc aaaatgaatc agagattaag
2521 gaagaggccc ccaagtcaga agatgacgag ttcatcatat cttctaagga catcaaggag
2581 gaaggaaaga agggcaaaaa caaaactggc cgtggcaaga aacacactgc attctccagc
2641 aagggcctga gcgatgagga gtatgacgag tacaagagga taagagaaga gagaaatggg
2701 aagtactcta tagaggagta tcttcaagac agagacaggt actatgagga gctcgccatt
2761 gccaaggcca cggaagaaga cttctgtgaa gaggaggaga tcaaaatccg tcagagaatt
2821 ttccgcccca ccaggaaaca aagaaaggaa gagagggcca cattagggct agtaacaggt
2881 tcagaaatca gaaaaagaaa ccctgatgac ttcaaaccca aagggaagct gtgggccgat
2941 gacaacagga gtgttgacta caatgagaaa ctggactttg aggccccccc aagcatatgg
3001 tctaggattg tgagctttgg ctctggctgg ggcttctggg tgtcaccaag ccttttcata
3061 acatcaactc atgtaatccc cgcaggcata acagaagcat ttggagtccc catcaaacaa
3121 gttcagatcc acaaatcagg cgaattttgc cgattcagat tcccaaaacc aattagacca
3181 gatgtgacag gaatgatttt ggaagaaggt gcgcctgaag gcaccgtggc aactgtgctc
3241 atcaaacgcc ccaccggaga gctcatgcct cttgcagcca gaatgggaac acacgcaacc
3301 atgaaaattc aaggccgcat ggttggcggg cagatgggta tgttgctcac tggatcaaat
3361 gctaaaggaa tggatttggg aacaactcct ggtgactgtg gctgtcctta catctataaa
3421 aggggcaatg actatatagt cattggggtg cacactgcag cagcccgtgg tggaaacact
3481 gtcatctgtg ccacacaggg aaatgagggt gaggcaactc ttgagggtgg agatgacaaa
3541 ggaacgtact gtggggcacc cattctaggc cctgggggtg caccaaaatt gagcaccaaa
3601 accaaatttt ggaggtcatc gaacacgccc cttccaccag ggacatatga gcctgcctac
3661 ctcggtggcc gtgatccgcg tgttaagggt gggccttccc tgcagcaggt gatgagagac
3721 cagttgaagc catttactga acccaggggc aaacctccga gaccaagtgt attggaagca
3781 gccaaacaaa ccatcatcaa tgtcctcgaa caaaccctgg accctccaca aaaatggacg
3841 tacgtacagg cgtgcgcctc acttgacaaa accacctcca gcgggcaccc ccatcacgtc
3901 cgaaagaatg aattctggaa tggtgagacc ttcactggta aactggcaga ccaagcatca
3961 aaagcaaacc taatgtttga ggaagggaaa cacatgacac cagtgtacac ggcagcactc
4021 aaggacgagc tagtcaagac tgagaaaatt tatggaaaga tcaagaagag actgctctgg
4081 ggctctgact tgtccaccat gatccggtgc gctaggtcat ttggtgggct tatggacgag
4141 atgaaggcac actgcatatc actcccagtc cgagttggca tgaatatgaa tgaagatggc
4201 ccaataatat ttgagaaaca ttccagatac aaatatcact atgatgcaga ctactctcgt
4261 tgggattcaa cgcaacagag ggcagttcta gcagcagcct tggaaatcat ggtcagattc
4321 tccgcagaac cacaattggc acaagtagtc gctgaggatc tgctggcccc tagtgtagta
4381 gatgtaggag actttaaaat cacaataaat gaagggctcc cttctggtgt gccatgcact
4441 tctcaatgga actccatcgc acactggctg ctaactctct gtgccttgtc tgaagtcacc
4501 aaactatccc ctgacattgt acaggcaaat tccatgttct cattttacgg tgatgacgag
4561 attgtcagta ccgacataaa attggaccct gaacagttaa ccgccaaatt gaaggagtac
4621 ggcctgaaac caacccgccc agacaaaacc gagggacccc tgattatcag tgaagatttg
4681 aacggtctca ctttcctccg aaggacggtg actcgtgacc cagctggctg gtttggaaaa
4741 ctggaccaaa gctcaatttt gaggcagatg tactggacta gaggaccaaa tcatgaagac
4801 cccaatgaga caatgatacc ccattcccaa agacccatac agctcatggc actgcttggt
4861 gaagcctctc ttcacggacc ctctttctac agtaaaatta gtaaattggt cataactgaa
4921 ctcaaagaag gtgggatgga cttttacgtg ccaaggcagg aacccatgtt caggtggatg
4981 aggttttctg acttgagcac gtgggagggc gatcgcaatc tggctcccaa ttttgtgaat
5041 gaagatggcg tcgaatgacg ccgctccatc tactgatggt gcagccggcc tcgtgccaga
5101 aagtaacaat gaggtcatgg ctcttgaacc cgtggctggt gccgccttgg cagccccggt
5161 cactggtcaa acaaatatta tagacccttg gattagagca aattttgtcc aggcccccaa
5221 tggtgaattt acagtctctc cccgaaatgc ccctggtgaa gtgttactga atctagagtt
5281 gggtccagaa ttaaatcctt atctggcaca tttagcaaga atgtacaatg ggtatgccgg
5341 tgggatggag gtgcaggtca tgttggctgg gaacgcgttc acagccggca agttggtctt
5401 cgccgccgtg ccaccccact tcccggttga aaaccttagc ccacagcaaa tcaccatgtt
5461 ccctcatgtg atcatagatg tgagaacctt ggaacctgtt ttattaccac tccctgatgt
5521 taggaataac ttcttccatt ataatcagaa agatgatccc aagatgagaa ttgtggctat
5581 gctttatacc ccccttaggt ccaatggttc aggtgatgat gtgtttacag tctcctgtag
5641 agtgttgact agaccttccc ctgactttga cttcacatac ttggtgccac caacagtgga
5701 gtctaaaaca aagccattca ccctcccaat cctcacactt ggggaacttt ccaattctag
5761 gttcccagtg tccatagacc agatgtacac cagccctaat gaaattatat cagtgcagtg
5821 tcaaaatggt aggtgcacgc tggacgggga gctccaagga acaacacaac tccaagtcag
5881 tggcatttgt gctttcaaag gtgaagtgac cgcccacttg catgacaatg atcacctata
5941 taatgttacc atcacaaatt tgaatgggtc cccttttgat ccctccgagg atatccctgc
6001 ccctttgggt gtgcctgact tccagggaag ggtttttggt atcatctccc aaagagataa
6061 acacaatagt cctggacata atgaaccagc aaacagggga cacgacgctg tggtccctac
6121 ttacacagca cagtacactc caaaacttgg acaaattcaa attggcacat ggcaaactga
6181 cgaccttaca gtcaaccaac cagtcaaatt caccccagtt ggactcaatg acactgaaca
6241 ctttaaccaa tgggttgtcc ctaggtatgc tggtgcccta aacctcaata caaaccttgc
6301 cccttctgtt gctccagtat ttccaggaga gcgtctgctc ttcttcagat catacattcc
6361 cctcaagggc ggttatggaa acccagccat tgattgccta ctaccacaag agtgggtgca
6421 acacttctat caggaagcag ccccttcaat gagtgaggtg gccctcgtca gatacatcaa
6481 cccagacact ggtcgggcac tgtttgaggc caagctccac agagctggtt tcatgacggt
6541 ctcgagcaac accagtgccc cggtggttgt gcctgccaac gggtacttca gatttgattc
6601 ttgggtgaac caattttatt ctctcgcccc catgggaact gggaatgggc gtagaagggt
6661 tcaataatgg ctggagcttt tgtagctggt cttgcagggg acgtgctcag caatgggctt
6721 agttcattaa tcaatgcagg tgctaatgca ataaatcaga gggcagaatt tgattttaat
6781 caaaaattgc agcaaaattc ttttaatcat gataaggaga tgttgcaggc tcagattcag
6841 gcaactaagc agctgcaggc agacatgatg gctataaaac aaggggtctt gaccgctggc
6901 ggcttttccc ctgctgatgc agccagaggt gctgtgaacg cgcccatgac acaggcgctg
6961 gattggaatg gtacaaggta ttgggcacca aactccatga ggaccacatc ttattctgga
7021 aaattcacat caaccgcccc agtgaggcag gctgacttcc agcacaccca aagccggcct
7081 tcgagtggct cctctgtgtc ttcctttgcc actcagtctt caaggccaac tctgaccaca
7141 accactggtt cctcacatgg catagcctca tcaaatttaa ctcgcagcac aagcctctcc
7201 caatcaacgg tctccagagc tacatctagg actggtgagt gggttagaga ccaaaataga
7261 aatttggaac cctacatgca tggtgcctta cagacagcct ttgtcacccc accttccagc
7321 agggcatctg acgggacagt ctcaaccgtc cctaaaggtg ttttggactc ctggacacct
7381 gcgtttaaca cccgcaggca gccgcttttt gcacacctcc gtaagagggg ggagtcaca
//