Typing tool
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Typing tool
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Complete norovirus genomes
| LC790055 | GII.2 | |
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| GII.P16 |
ORF1: 1..3398
ORF2: 3379..5007
ORF3: 5007..5781
LOCUS LC790055 5781 bp RNA linear VRL 13-DEC-2023
DEFINITION Norovirus GII.2 GII/Hu/JP/2022/GII.2[P16]/TKY220913 POL, VP1, VP2
genes, partial and complete cds.
ACCESSION LC790055
VERSION LC790055.1
KEYWORDS .
SOURCE Norovirus GII.2
ORGANISM Norovirus GII.2
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE The Detection of Norovirus in Tokyo
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 5781)
AUTHORS Asakura,H., Yokota,S., Kuroki,K., Isogai,M., Hayashi,Y.,
Fujiwara,T., Miyake,H., Nagashima,M. and Sadamasu,K.
TITLE Direct Submission
JOURNAL Submitted (09-DEC-2023) Contact:Hiroyuki Asakura Tokyo Metropolitan
Institute of Public Health, Department of Microbiology; Hyakunincho
3-24-1, Shinjyuku-ku, Tokyo 169-0073, Japan URL
:https://www.tmiph.metro.tokyo.lg.jp/
FEATURES Location/Qualifiers
source 1..5781
/organism="Norovirus GII.2"
/mol_type="genomic RNA"
/isolate="GII/Hu/JP/2022/GII.2[P16]/TKY220913"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:490039"
/country="Japan"
/collection_date="2022-11"
gene <1..3398
/gene="POL"
CDS <1..3398
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BEV21179.1"
/translation="PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRR
IDFLVYAEAPEVEKAKRDFPGQPDMWKDTFKPDFSHIKLQLAPQGGFDKNGNTPHGKG
VMKTLTTGSLIARASGLLHERMDEFELQGPTITTFNFDRNRITAFRQLAAENKYGLVD
TMKVGNQLKGVKTMEELKQAIRNVTINRCQIIYGGSTYDLESDGKGKVLVEKVKNTSV
QTNNELAGALHHLKHARIRYYVKCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKP
QLDQNELETKEEAPKSEDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEY
DEYKRIREERNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRK
QRKEERATLGLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIV
SFGSGWGFWVSPSLFITSTHVIPAGITEAFGVPIKQIQIHKSGEFCRFRFPKPIRPDV
TGMILEEGAPEGTVATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSN
AKGMDLGTTPGDCGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGD
DKGTYCGAPILGPGGAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQ
VMRDQLKPFTEPRGKPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSS
GHPHHARKNEFWNGETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKIYG
KIKKRLLWGSDLSTMIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRY
KYHYDADYSRWDSTQQRAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKIT
INEGLPSGVPCTSQWNSIAHWLLTLCALSEVTKLSPDIIQANSMFSFYGDDEIVSTDI
KLDPEQLTAKLKEYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQS
SILRQMYWTRGPNHEDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELK
EGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 3379..5007
/gene="VP1"
CDS 3379..5007
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BEV21180.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 5007..>5781
/gene="VP2"
CDS 5007..>5781
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BEV21181.1"
/translation="MAGAFVAGLVGDVLSNGLSSLISAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPNSMRTTSYSGKFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTSLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESR"
ORIGIN
1 gtccccttac cttaaattgt gacagaattg aaaataaggg aaaagttttt gacagtgaag
61 tcataataat tacaacaaac cttgccaatc cagccccact tgattatgtc aactttgagg
121 cctgttccag gagaattgat ttcctggtgt acgctgaggc accagaagta gaaaaggcaa
181 aacgggactt tcctggtcag ccagatatgt ggaaggacac cttcaagccg gacttttcac
241 acatcaagct acagcttgca ccccagggcg gctttgataa gaatggcaac accccacatg
301 ggaaaggagt gatgaagacc ctcactaccg gttctctgat tgcccgtgca tcaggcctac
361 tgcatgagag gatggatgag tttgaactcc aaggccccac aatcaccacc tttaatttcg
421 accgaaacag aatcacggca ttcagacaac tggctgcaga aaacaagtat ggattggtgg
481 ataccatgaa agttggcaat caattaaaag gagtgaaaac catggaagaa ctcaaacaag
541 caatcaggaa tgtgaccatc aataggtgcc agatcatcta cggtggctcc acgtatgacc
601 ttgaatctga tggcaagggc aaagttttgg tggaaaaggt caagaacacc tctgtacaga
661 ccaataacga gttggctggg gccctgcacc atctcaaaca tgcccgaatc aggtactatg
721 tcaaatgtgt gcaagaagca gtttactcca tcatacaaat tgccggcgct gcgtttgtca
781 ccacgcgcat cgcacgccgc atgaacatac aagaactctg gtcgaagcca caactagatc
841 aaaatgaatt agagactaag gaagaggccc ccaagtcaga agacgacgag ttcatcatat
901 cttctaagga catcaaggag gaaggaaaga agggcaaaaa caaaactggc cgtggcaaga
961 aacacactgc attctccagc aagggcttga gcgatgagga gtatgacgag tacaagagaa
1021 taagagaaga gagaaatggg aagtactcta tagaggagta tcttcaagac agagacaggt
1081 actatgagga gctcgccatt gccaaggcca cggaagaaga cttctgtgaa gaggaggaga
1141 tcaaaatccg tcagagaatt ttccgtccca ccaggaaaca aagaaaggaa gagagggcca
1201 cattaggact agtaacaggt tcagaaatca gaaaaagaaa ccctgatgac ttcaaaccca
1261 aagggaagct gtgggccgat gacaacagga gtgttgacta caatgagaaa ctggactttg
1321 aggccccccc aagcatatgg tctaggattg tgagctttgg ctctggctgg ggcttctggg
1381 tgtcaccaag ccttttcata acatcaactc atgtaatccc cgcaggcata acagaagcgt
1441 ttggagtccc catcaaacaa attcagatcc acaaatcagg cgaattttgc cgattcagat
1501 tcccaaaacc aattagacca gatgtgacag gaatgatttt ggaagaaggt gcgcctgagg
1561 gcaccgtggc aactgtgctc atcaaacgcc ccaccggaga gctcatgcct cttgcagcca
1621 gaatgggaac acacgcaacc atgaaaattc aaggccgcat ggttggcgga cagatgggta
1681 tgttgctcac tggatcaaat gctaaaggaa tggacttggg aacaactcct ggtgactgtg
1741 gctgtcctta catctataaa aggggcaatg actatatagt cattggggtg cacactgcag
1801 cagcccgtgg tggaaacact gtcatctgtg ccacacaggg aagtgagggt gaggcaactc
1861 ttgagggtgg agatgacaaa ggaacatact gtggggcacc cattctaggc cctgggggtg
1921 cgccaaaatt gagcaccaaa accaaatttt ggaggtcatc gaacacgccc cttccaccag
1981 ggacatatga gcctgcctac ctcggtggcc gtgatccgcg tgttaagggt gggccttccc
2041 tgcagcaggt gatgagagac cagttgaagc cattcactga acccaggggc aaacctccaa
2101 gaccaagtgt attggaagca gccaaacaaa ccatcatcaa tgtcctcgaa caaaccctgg
2161 accctccaca aaaatggact tacgcacagg cgtgcgcctc acttgacaaa accacctcca
2221 gtgggcaccc ccatcacgcc cgaaagaatg aattctggaa tggtgagacc tttactggta
2281 aactggcaga ccaagcatca aaagcaaacc taatgtttga ggaagggaaa cacatgacac
2341 cagtgtacac agcagcactc aaggacgagc tagtcaagac tgagaaaatt tatggaaaga
2401 tcaagaagag actgctctgg ggctctgact tgtccaccat gatccggtgc gctaggtcat
2461 ttggtgggct tatggacgag atgaaggcac actgcatatc actcccagtc cgagttggca
2521 tgaatatgaa tgaagatggc ccaataatat ttgagaagca ttccagatac aaatatcact
2581 atgatgcaga ctactctcgt tgggattcaa cacaacagag ggcagttcta gcagcagcct
2641 tggaaatcat ggtcagattc tctgcagaac cacaattggc acaaacagtc gctgaggatc
2701 tgctggcccc tagtgtagta gatgtaggag actttaaaat cacaataaat gaagggctcc
2761 cttctggtgt gccatgcact tctcaatgga actccatcgc acactggctg ctaactctct
2821 gtgccttgtc tgaagtcacc aaactatccc ctgacattat acaggcaaat tccatgttct
2881 cattttacgg tgatgacgag attgtcagta ccgacataaa attggaccct gaacagttaa
2941 ccgccaaatt gaaggagtac ggcctgaaac caacccgccc agacaaaact gagggacccc
3001 tgatcatcag tgaagatttg aacggtctca ctttcctccg aaggacggtg actcgtgacc
3061 cagctggctg gtttggaaaa ctggaccaaa gctcaatttt gaggcagatg tactggacta
3121 gaggaccaaa tcatgaggac cccaatgaga caatgatacc ccattcccaa agacccatac
3181 agctcatggc actgcttggt gaagcctctc ttcacggacc ctctttctac agtaaaatca
3241 gtaaattggt cataactgaa ctcaaagaag gtgggatgga cttttacgtg ccaaggcagg
3301 aacccatgtt caggtggatg aggttttctg acttgagcac gtgggagggc gatcgcaatc
3361 tggctcccaa ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc tactgatggt
3421 gcagccggcc tcgtgccaga aagtaacaat gaggtcatgg ctcttgaacc cgtggctggt
3481 gccgccttgg cagccccggt taccggtcaa acaaatatta tagacccttg gattagagca
3541 aattttgtcc aggcccccaa tggtgaattt acagtctctc cccgaaatgc ccctggtgaa
3601 gtgctactga atctagagtt gggtccagaa ttaaatcctt atctggcaca tttagcaaga
3661 atgtacaatg ggtatgccgg tgggatggag gtgcaggtca tgttggctgg gaacgcgttc
3721 acagccggca agttggtctt cgccgccgtg ccaccccact tcccggttga aaaccttagc
3781 ccacagcaaa tcaccatgtt ccctcatgtg atcatagatg tgagaacctt ggaacctgtt
3841 ttattaccac tccctgatgt taggaataac ttcttccatt acaaccagaa agatgatccc
3901 aagatgagaa ttgtggctat gctttatacc cccctcaggt ctaatggttc aggtgatgat
3961 gtgttcacag tctcctgtag ggtgttgact agaccttccc ctgactttga cttcacatac
4021 ctggtgccac caacagtgga gtctaaaaca aagccattca ccctcccaat cctcacactt
4081 ggggagcttt ccaattctag gttcccagta tccatagacc agatgtacac cagccctaat
4141 gaaattatat cagtgcagtg tcaaaatggt aggtgcacat tggacgggga gctccagggg
4201 acaacacaac tccaagtcag tggcatttgt gctttcaaag gtgaagtgac cgcccacttg
4261 catgacaatg atcacctata taatgtcacc atcacaaact tgaatgggtc cccttttgat
4321 ccctccgagg acatccctgc ccctttgggt gtgcctgact tccagggaag ggtttttggt
4381 atcatctccc aaagagataa acacaatagt cctgggcata atgaaccagc aaacagggga
4441 catgacgctg tggtccctac ttacacagca cagtacactc caaaacttgg acaaattcaa
4501 attggcacat ggcaaactga cgaccttaca gtcaaccagc cagttaaatt caccccagtt
4561 ggactcaatg acactgaaca ctttaaccaa tgggtggtcc ctaggtatgc tggtgctcta
4621 aacctcaata caaaccttgc cccttctgtt gctccagtat ttccaggaga gcgcctgctt
4681 ttcttcagat catacattcc cctcaagggc ggttatggaa acccagccat tgattgccta
4741 ctaccacaag agtgggtgca gcacttctat caggaagcag ccccttcaat gagtgaggtg
4801 gccctcgtca gatacatcaa cccggacact ggtcgggcac tgtttgaggc caagctccac
4861 agagctggtt tcatgacagt ctcgagcaac accagtgccc cggtggttgt gcctgccaac
4921 gggtacttca gatttgattc ttgggtgaac caattttact ctctcgcccc catgggaact
4981 gggaatgggc gtagaagggt tcaataatgg ctggagcttt tgtagctggt cttgtagggg
5041 acgtgctcag caatgggctt agttcattaa tcagtgcagg tgctaatgca ataaatcaga
5101 gggcagaatt tgattttaat caaaaattgc agcaaaattc ttttaatcat gataaggaga
5161 tgttgcaggc tcagattcag gcaaccaagc agctgcaggc agacatgatg gctataaaac
5221 aaggggtctt gaccgctggc ggcttttccc ctgctgatgc agccagaggt gctgtgaacg
5281 cgcccatgac acaggcgctg gattggaatg gcacaaggta ttgggcacca aactccatga
5341 ggaccacatc ttattctgga aaattcacat caaccgcccc agtgaggcag gctgacttcc
5401 agcataccca aagccggcct tcgagtggct cctctgtgtc ttcctttgcc actcagtctt
5461 caaggccaac tctgaccaca accactggtt cctcacatgg cacagcctca tcaaattcaa
5521 ctcgcagcac aagcctctcc caatcaacgg tctccagagc tacatctagg actggtgagt
5581 gggttagaga tcaaaataga aatttggaac cctacatgca tggtgcctta cagacagcct
5641 ttgtcacccc accttccagc agggcatctg acgggacagt ctcaaccgtc cctaaaggtg
5701 ttttggactc ctggacacct gcgttcaaca cccgcaggca gccgcttttt gcacacctcc
5761 gtaagagggg ggagtcacga g
//