Typing tool
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Typing tool
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Complete norovirus genomes
| LC209466 | GII.2 | |
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| GII.P16 |
ORF1: 1..5088
ORF2: 5069..6697
ORF3: 6697..7476
LOCUS LC209466 7520 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2012/GII.P16_GII.2/Hokkaido-18 RNA, nearly
complete genome.
ACCESSION LC209466
VERSION LC209466.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2012/GII.P16_GII.2/Hokkaido-18
ORGANISM Norovirus Hu/GII/JP/2012/GII.P16_GII.2/Hokkaido-18
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Mizukoshi,F., Nagasawa,K., Doan,Y.H., Haga,K., Yoshizumi,S.,
Ueki,Y., Shinohara,M., Ishikawa,M., Sakon,N., Shigemoto,N.,
Okamoto-Nakagawa,R., Ochi,A., Murakami,K., Ryo,A., Suzuki,Y.,
Katayama,K. and Kimura,H.
TITLE Molecular Evolution of the RNA-Dependent RNA Polymerase and Capsid
Genes of Human Norovirus Genotype GII.2 in Japan during 2004-2015
JOURNAL Front Microbiol 8, 705 (2017)
PUBMED 28487679
REMARK DOI:10.3389/fmicb.2017.00705
Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7520)
AUTHORS Mizukoshi,F., Matsushima,Y., Ishikawa,M. and Kimura,H.
TITLE Direct Submission
JOURNAL Submitted (12-JAN-2017) Contact:Mariko Ishikawa Kawasaki City
Institute for Public Health, Division of Virology; Tonomachi
3-25-13, Kawasaki-ku, Kawasaki, Kanagawa 210-0821, Japan
FEATURES Location/Qualifiers
source 1..7520
/organism="Norovirus
Hu/GII/JP/2012/GII.P16_GII.2/Hokkaido-18"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2012/GII.P16_GII.2/Hokkaido-18"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934292"
/country="Japan: Hokkaido"
/collection_date="2012"
/note="genotype: GII.P16_GII.2"
gene <1..5088
/gene="POL"
CDS <1..5088
/gene="POL"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BBB87016.1"
/translation="MASNDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQ
PAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRFEVKSGISGLPDLTTVPQPDAT
NTAFSVPPLSLRENREAKEPLTGAIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
KVELAPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
SRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIK
PLNILNILATCDWTFAGIVESLILFAELFGVYWTPPDVSAMIAPLLGEYELQGPEDIA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARKLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAK
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTITTFNFDRNRVTAFRQLAAENKYGLVDTMRIGNQLKGVKTMEE
LKQAIKNVSIKRCQIIYHGSTFDLESDGKGKVTVEKVKNTTVQTNNELAGALHHLRSA
RIRYYVKCVQEAIYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEVKEETPKL
EDDEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIARATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSE
IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPSGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMV
RCARAFGGLMDEMKAHCISLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWN
SISHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGL
KPTRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5069..6697
/gene="VP1"
CDS 5069..6697
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87017.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNTPGHNEPANRAHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGTPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6697..7476
/gene="VP2"
CDS 6697..7476
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87018.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQVQATKQLQADMMAIKQGVLAAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTAYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSYGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 atggcgtcta acgacgctac cgttgccgtt gcttgcaaca acaacaacga caaggaaaaa
61 tcttcgggtg aaggcttatt tacaaatatg tcttccaccc taaagaaagc cctcggggct
121 cggcctaaac agcctgcccc gagggacaac tcacaaaaac ccccaagacc accaacgccc
181 gagttggtta aaaggatacc ccccccccca cctaatggcg aagaagagcc agtcattagg
241 tttgaggtca agagtggaat ttctggcctg cccgatctca cgacagttcc tcaaccagat
301 gcgaccaata cggcattcag tgttccaccg ttgagcttaa gagaaaacag ggaggccaag
361 gaaccgctaa ctggggcaat aatagagatg tgggatggag agatatacca ctatggtttg
421 tatgtggaga aaggcctagt cttgggtgtg cacaaaccac ccgcagctat aagcatggca
481 aaagtggaat tagcaccgct gtcgttatac tggcgtgtgg tgtacactcc ccaatacctc
541 atctcccctg acactctcaa gaggctcaac ggagaggcat tcccctacac cgcctttgat
601 aataactgtt atgccttttg ctgctgggtg ttagacctta atgactcatg gctcagcaga
661 agaatggtgc agaggacgac aggctttttc agaccatacc aagagtggaa cagaaagccc
721 ctacccacca tggatgattc caaaattaag aaggtggcaa acatattcct atgttcatta
781 tctacactgt tcaccaggcc tataaaagac atcataggga aaatcaaacc actgaatatc
841 ttaaacattc tggcaacgtg tgattggacg ttcgccggaa tcgtagagtc tctaatatta
901 tttgctgaac tctttggagt ttactggaca cccccagatg tgtctgctat gatcgctccc
961 ttacttggcg aatacgagtt gcagggacca gaagacatcg ccgttgagct cgtacctgta
1021 gtgatggggg ggattggttt ggtgctaggg ttcaccaaag agaaaattgg caaaatgctg
1081 tcctcagcag cgtcaacgct cagggcttgc aaagaccttg gtgcctatgg tttagagata
1141 ctcaaattag tcatgaaatg gtttttccca aagaaagaag aagccaatga actagccatg
1201 gtgagagcaa tagaggatgc tgttctggat cttgaggcga tagaaaacaa tcacatgaca
1261 gccctgctga aagataaaga cagccttgca acctacatga aaacactgga cctagaggag
1321 gagaaagcca gaaaactgtc cacgaaatct gcatctcctg acatagttgg gacaatcaac
1381 gccctgctgg ctcgaatagc ggcggctaga tcactagtcc acagggccaa ggaggagcta
1441 tctagcagaa tcagaccagt tgtcgttatg atatctggca agccagggat aggcaagacc
1501 cacttggcca gggaggtggc gaaaaaggtg gcgtccactc tcacaggaga tcaaagagtt
1561 ggactcatac cgagaaacgg tgtggaccat tgggatgcat acaaaggtga aagggtcgtg
1621 ttgtgggatg actatggcat gagtaaccct attcatgatg cactgcgcat acaggaattg
1681 gccgacacat gccccctcac cttgaattgt gacagaattg aaaataaggg aaaagttttt
1741 gatagtgatg ttataataat tacaacaaac cttgccaacc cagctcctct tgattatgtc
1801 aactttgagg cctgttccag gagaattgac ttcctggtgt acgccgaagc gccagaagtg
1861 gaaaaggcaa aacgggattt ccctggtcaa ccagatatgt ggaaggacgc cttcaaagcg
1921 gacttctcgc acatcaagtt gcaacttgca cctcagggcg gctttgacaa gaatggcaac
1981 accccacatg ggaaaggagt gatgaagacc cttaccaccg gttctctgat cgcccgtgcg
2041 tcaggtttgc tacatgagag gatggatgaa tttgaacttc agggccccac aatcaccact
2101 ttcaactttg accggaacag agtcaccgct ttcagacaac tggctgctga gaacaaatat
2161 gggctggtgg acaccatgag gattggcaat caattgaaag gggtgaaaac catggaagaa
2221 ctcaagcaag ctatcaagaa tgtgtccatc aagaggtgcc agattatcta ccatggatcc
2281 acgtttgacc ttgagtctga tggcaagggt aaagttacag tggaaaaggt caaaaacacc
2341 actgttcaga ccaacaacga attggccgga gccctgcacc acctcagaag tgctcgaatc
2401 aggtattatg tcaaatgtgt gcaagaggca atctattcca tcctacaaat tgccggtgcc
2461 gcgttcgtca ccacacgcat tgcacgccgc atgaatatac aagagctttg gtcaaagcca
2521 ccattagacc aaagcgagcc agaggttaag gaggagaccc ccaagttaga ggatgatgaa
2581 ttcatcatct cctccaagga cattaaggag gaagggaaga agggtaaaaa caaaactggc
2641 cgtggcaaga aacacactgc attctctagc aagggcttaa gcgatgagga gtatgacgag
2701 tacaagagga taagagaaga gagaaatggg aagtactcta tagaggagta tcttcaagac
2761 agggacaggt actatgaaga actcgccatc gccagggcca cggaagaaga cttttgtgag
2821 gaggaagaaa taaaaatccg ccagcggatc tttcgtccca ctagaaaaca aaggaaggaa
2881 gaaagggcca cgttagggct agtgactggt tcggaaatca gaaaaagaaa ccctgatgac
2941 ttcaaaccta aagggaaatt gtgggccgac gacaacagaa gtgttgacta caatgaaaaa
3001 ctggactttg aggccccccc aagcatatgg tctaggatcg taagctttgg ttcaggttgg
3061 ggcttctggg tgtcaccaag cctgtttata acatcaactc atgtgatccc ttcgggtata
3121 acagaggcat ttggagtccc tatcaaacag attcaagtcc acaaatcggg cgagttttgt
3181 cggttcagat tcccaaaacc aattagacca gatgtaacag gaatgatcct ggaagaaggt
3241 gcgccagagg gcaccgtagc aaccgtgctc atcaagcgcc ccactgggga actcatgccc
3301 ctcgcagcta gaatgggaac acacgcaacc atgaaaattc agggccgcat ggttggtggg
3361 cagatgggca tgttgctcac tggttcaaat gctaagggta tggatctggg gacaactccc
3421 ggtgactgtg gctgcccgta tatttacaaa aggggcaatg actacatagt cattggagtg
3481 cacacagcag cagcccgagg tggtaatact gtcatctgtg ccacacaggg aagtgagggt
3541 gaagcgaccc tcgagggtgg agacgacaaa ggaacatact gtggggcacc catcctgggc
3601 cctggagggg cgccaaagtt aagcacaaaa accaaatttt ggagatcatc aaacacgccc
3661 cttccaccag ggacatatga gcctgcctac cttggtggtc gtgatccgcg tgtaaagggt
3721 gggccttccc tacaacaagt catgagagat cagttaaagc ccttcaccga gcccaggggt
3781 aaacccccga gacctagtgt gctggaggca gccaaacaga ccatcatcaa cgttctcgag
3841 caaactttgg atcctccaca aaaatggacg tacgcacagg cgtgcgcttc acttgataaa
3901 accacctcta gtgggcaccc ccatcacgct cgaaagaatg aattctggaa cggtgagacc
3961 tttaccggta agttggcaga ccaagcatca aaagcaaact taatgtttga ggaagggaaa
4021 catatgacac cagtgtacac agcagccctt aaggatgagt tggttaaaac cgacaaaatc
4081 tatgggaaga tcaagaaacg cctgctttgg ggctctgatt tatccaccat ggtccgatgt
4141 gctagggcct ttggtggact catggacgag atgaaggcgc actgcatatc gctcccaatc
4201 cgagttggca tgaatatgaa tgaggatggc ccgataatat ttgagaagca ctccagatat
4261 aaatatcact atgatgcaga ttactctcgc tgggactcaa cacaacagag ggctgttcta
4321 gcagcggcct tggaaataat ggtcagattc tctgcagaac cgcaactggc ccaaacagtt
4381 gctgaggatc tgctggcccc cagtgtagta gatgtcggag acttcaaaat ttcaataaat
4441 gagggactcc cttctggtgt accatgcact tcccagtgga actccatctc acactggcta
4501 ctaactctct gtgctttgtc tgaagtcacc aatctgtctc ctgacatcgt gcaggcaaat
4561 tctatgttct cattttacgg tgatgacgag atcgtcagca ccgatataaa attggaccct
4621 gaaaagttaa ccaccaaatt gagggagtat ggtctaaaac caactcgccc agacaaaacc
4681 gaggggccct tgatcatcag tgaggatttg gacggtctca ccttcctccg gaggacggtt
4741 tctcgtgacc cagctggttg gtttggaaag ttagatcaaa gctcaatact aaggcagatg
4801 tattggacca gaggaccaaa ccatgaagac cccaatgaga caatgatacc ccactctcaa
4861 agacccatac agctcatggc actgcttggt gaggcctccc ttcacggacc ctctttctac
4921 agcaagatta gtaaattggt cataactgaa ctcaaagaag gtgggatgga cttttacgtg
4981 ccaagacagg aacccatgtt cagatggatg aggttttctg acttgagcac gtgggagggc
5041 gatcgcaatc tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccgctccatc
5101 tactgatggt gcagccggcc tcgtgccaga aagtaataat gaggtcatgg ctcttgaacc
5161 cgtggctggt gccgccttgg cagccccagt caccggtcaa acaaatataa tagacccttg
5221 gattagagca aattttgtcc aggcccccaa tggtgaattt acagtctctc cccgtaactc
5281 ccctggtgaa gtgctattga atctagagtt gggtccagaa ttaaatcctt atctggcaca
5341 cttagcaaga atgtacaatg ggtatgccgg tgggatggag gtgcaggtca tgttggctgg
5401 gaatgcgttc acagccggca agttagtctt cgccgctgtg ccaccccact tcccggtcga
5461 aaaccttagc ccacagcaaa ttaccatgtt ccctcatgtg attatagatg tcaggacttt
5521 ggaacccgtt ttattaccac tccctgatgt taggaataac ttcttccatt acaatcagaa
5581 agatgatccc aagatgagaa ttgtggctat gctttacacc ccccttaggt ctaacggttc
5641 aggcgatgat gtgttcacag tctcctgcag ggtgttgact agaccctccc ctgattttga
5701 tttcacatat ctggtgccac caacagtgga atctaaaaca aaaccattca ctctcccaat
5761 cctcacgctt ggggaacttt ccaattctag attcccagtg tccatagacc agatgtacac
5821 cagccccaat gaagtcatat cagtgcagtg tcaaaatggc aggtgcacac tggatggtga
5881 actccaagga acaacacaac tccaagtcag tggcatttgt gctttcaagg gagaagtgac
5941 tgcccacttg catgacaatg atcacctata taatgtcacc atcacaaact tgaatgggtc
6001 cccttttgac ccctccgagg acatccccgc ccctctgggc gtacctgact ttcagggaag
6061 ggtctttggt gtcatctccc aaagagacaa acacaacacc cctggacata atgaaccagc
6121 aaacagggca cacgatgccg tggtccctac ttatacagca cagtataccc caaaattggg
6181 tcagattcaa attggcacat ggcagactga cgatctcaca gtcaaccaac cagtcaaatt
6241 caccccagtt ggacttaatg acactgacca ttttaaccaa tgggtggtcc ccaggtatgc
6301 tggtgcccta aaccttaaca caaaccttgc cccttctgtc gctccagtat ttccaggaga
6361 gcgtctgctc tttttcagat catacatccc cctcaagggc ggttatggaa ctccagccat
6421 cgattgccta ctaccacaag agtgggtgca acatttctat caggaagcag ccccttcgat
6481 gagtgaggtg gcccttgtca gatacatcaa cccggatact ggtcgggcac tgtttgaggc
6541 caaactccac agagctggtt tcatgacagt ctcaagcaac accagtgccc cggtggttgt
6601 gcctgccaac ggatacttca ggtttgattc ttgggtgaac caattctatt ctctcgcccc
6661 catgggaact ggaaatgggc gcagaaggat ccaataatgg ctggagcttt tgtagctggt
6721 cttgcagggg acgtgctcag caatgggctc agttcattaa ttaatgcagg tgctaatgca
6781 ataaatcaga gggcagaatt tgatttcaat cagagattac agcaaaattc tttcaatcat
6841 gataaggaaa tgttgcaggc ccaggtccag gcaactaagc agctgcaggc agacatgatg
6901 gctataaaac agggggtcct ggccgctggc ggcttttccc ctgctgatgc agccagaggt
6961 gctgtgaacg cgcccatgac acaggcgctg gattggaacg gcacaaggta ttgggcacca
7021 ggctccatga ggactacagc ctactctggg agattcacat caaccgcccc agtgaggcag
7081 gctgatttcc agcacaccca aagccggcct tcgagtggtt cttctgtgtc ctcctttgct
7141 actcagtctt caaggccgac cctgactaca accactgggt cctcatatgg cacagcctca
7201 tcaaattcga ctcgcagcac aaacctctcc caatcaacgg tctccagggc tacatctagg
7261 actggtgaat gggttagaga ccaaaacaga aatttggaac cttacatgca tggtgcctta
7321 cagacggcct ttgtcacccc accttccagc agggcgtctg atgggacggt ctcaaccgtt
7381 ccaaaaggtg ttttggactc ctggacacct gcgtttaaca cccgcaggca gccgcttttc
7441 gcacacctcc gtaagagggg ggagtcacaa gcttagtgaa aaggtgaaaa tttatttaaa
7501 atgaattgat tttacctttt
//