Typing tool
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Typing tool
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Complete norovirus genomes
| LC209438 | GII.2 | |
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| GII.P2 |
ORF1: 1..5098
ORF2: 5079..6707
ORF3: 6707..7486
LOCUS LC209438 7523 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-86 RNA, nearly
complete genome.
ACCESSION LC209438
VERSION LC209438.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-86
ORGANISM Norovirus Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-86
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 7523)
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..7523
/organism="Norovirus
Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-86"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2004/GII.P2_GII.2/Tochigi-86"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934264"
/country="Japan: Tochigi"
/collection_date="2004"
/note="genotype: GII.P2_GII.2"
gene <1..5098
/gene="POL"
CDS <1..5098
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBB86932.1"
/translation="KMASNDASAAAAVNSNNDNTKSSSDGMFNNVAVTLKRALGARSK
QPAPREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPE
ANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISI
AKVELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSW
LSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKL
KPLNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDI
AVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPK
KDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTK
SASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELA
KKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCP
LTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKA
KRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARAS
GLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMD
ELKKAIKNIIIRKCQIVYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLRC
ARIRYYVKCVQEAIYSLLQIAGTVFVTSRIISRMNIQNLWSRPLTEDADEATMKEGCP
KPREEEEFVVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGK
YSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVT
GSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPS
LFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGT
VATILIKRTTGELMPLAARMGTHATMRIQGRAVGGQMGMLLTGSNAKSMDLGTTPGDC
GCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGP
GNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPR
GKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWN
GESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLA
TMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDS
TQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTS
QWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLRE
YGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPN
HEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEP
MFRWMRFSDLSTWEGDRNLAPSLVNEDGVD"
gene 5079..6707
/gene="VP1"
CDS 5079..6707
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB86933.1"
/translation="MKMASIDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTSQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6707..7486
/gene="VP2"
CDS 6707..7486
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB86934.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHDTASSNSTRNTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gaagatggcg tctaacgacg cttctgctgc cgctgctgtt aacagcaaca acgacaacac
61 aaaatcttca agtgacggaa tgtttaacaa cgtggccgtc acccttaaac gagccctcgg
121 ggcccggtcc aaacagccgg ccccgaggga aaaaccccca agacccccta gaccaccaac
181 accagaacta atcaaaagaa ttcccccccc accacccaat gatggggacg aaccaaccgt
241 gatgtttagc actgtaggtg gtgtgtctgg cctacctgag ctcacaacag tcggtcaacc
301 acctgaagct aacacggcct ttagtgtgcc tcccctcagc caaagggaaa acagggacgc
361 taaggaaccg ctaactggaa ctattctgga aatgtgggat ggggagatct atcattatgg
421 actgtatgtg gaaagagggc ttgtgttagg cgtgcacaag ccgccagctg ccatcagcat
481 agccaaagtg gaattaacgc ccctctcact gtattggaga cctgtgtaca cgcctcagta
541 cctcatatcc cctgacacct tgaggaaact ccatggtgaa ttgtttccct atacagcctt
601 tgaaaacaac tgttatgcct tctgctgttg ggttttggat cttaacgatt catggctaag
661 caggaggatg attagtagga ccactggctt tttcaggccc taccaagagt ggaacaggaa
721 gccccttcca actatggatg actcaaaatt gaagaaggtc gcaaacatcg ttctgtgtgc
781 attgtcatca ttgttcacta gacccatcaa ggatataatt ggcaaactta aacccctcaa
841 catcctaaac attctggcct catgcgattg gactttcgct ggcatagtag agtcactaat
901 cctcttggct gaactctttg atgtgttctg gacaccccca gatgtgtctg caatgatcgc
961 acccctcctc ggtgactacg agctacaagg ccccgaagac atcgctgtgg agctcgtgcc
1021 cgttgtgatg ggtgggatag gtctggtgtt gggattcacc aaagagaaaa taggtaagat
1081 gctctcctct gcagcgtcaa ccctgagggc atgcaaagat cttggagcct atggattgga
1141 gatcttgaaa ctagtcatga aatggttttt cccaaagaag gatgaggcca acgaactggc
1201 tatggttaga gccattgaag acgctgtatt agacctggag gccattgaga acaaccatat
1261 gaccactcta ttgaaagaca agaacagcct tgcagcctac atgaagacct tggacatgga
1321 agaggaaaaa gctaggaagt tatccaccaa atcagcctcc cctgacattg tgggcaccat
1381 aaacgccctg ctggctagga tcgccgccgc gcgttcctta gttcataggg ccaaggagga
1441 gctctctagc agaccaagac cggtcgttct gatgatctct ggcaaaccag ggataggaaa
1501 gacccacttg gccagagaac tggcaaagaa aattgcctcg acgctcacag gagatcagag
1561 ggtgggcctc atcccacgga atggagttga ccactgggac gcctacaaag gtgagagagt
1621 ggtgctctgg gatgactacg ggatgagcaa ccccatccac gatgcgctga ggttgcagga
1681 gctggcagac acatgtccat taactttaaa ttgtgacagg attgaaaaca aggggaaagt
1741 cttcgatagc gacgcgatca taattaccac caatttggtc aatcccgcgc cgctggatta
1801 cgtcaacttt gaggcctgct ccagacgtat agacttcctt gtgtatgctg atgccccaga
1861 agtcgagaag gcaaagcggg acttccctgg tcaaccggac atgtggaagg acgcctatcg
1921 ctctgacttc tcacacatta aactacaact tgcaccacag ggtgggtttg acaaaaatgg
1981 aaacacccca catggtaaag gagtgatgaa gactctcact gccagttcat tggttgcacg
2041 tgcctctggc ctcttgcacg agagattaga tgagtacgag ctacagggtc cgcccctctc
2101 aaccttcaac tttgaccgca acaaaattgc agcgttcagg caactcgccg ctgaaaataa
2161 gtatggtctg gtggacacga tgagggtggg caaccagctc agaaatgtta cgaccatgga
2221 tgaactcaag aaggctatca agaacatcat aatcagaaag tgccagatag tctacggtgg
2281 taacacttac acgcttgagt ctgacggcaa gggtaaggtt gtggttgaga gggtgcagag
2341 cgccagcgtg caaatcaaca atgagatcgc tggtgcagta caccacctta gatgtgccag
2401 gataaggtat tatgtcaagt gtgtccaaga ggccatctac tcactcctcc aaatcgccgg
2461 cacggtgttt gtcacttcac gcatcataag ccgcatgaac atccaaaatt tatggtccag
2521 gccactaacc gaagatgcag atgaggccac tatgaaagag gggtgcccca aacctaggga
2581 ggaagaggaa tttgtcgtct cctcagatga catcaagcca gagggcaaga aaggtaaaaa
2641 caagagtggc cggggcaaga aacacacggc attctcaagc aagggtctca gtgatgagga
2701 gtacgaagag tacaaaagga tcagagagga gagaaatggc aagtactcca tagaggaata
2761 cctacaggac agagacaaat actatgaaga ggtggccatt gccagggcaa ctgaagaaga
2821 cttctgtgaa gaggaagagg ttaagattcg tcagaggatc ttcaggccaa caagaaaaca
2881 acgcaaggaa gaaagagcca accttggcct cgttaccggg tctgagatca gaaagaggaa
2941 cccagatgac ttcaaaccaa aaggaaagct gtgggccgac gatgatagga gcgtcgacta
3001 caatgaaaga atcagctttg aggccccacc aagtatatgg tctagaattg tcaactttgg
3061 ttctggatgg gggttttggg tgtcacctag cctcttcata acatcaacac atgtcatacc
3121 tcaaggcata actgaggcct ttggtgtacc tataaggcag gtgcaaatac acaaatcagg
3181 cgaattctgt cgcctgagat tcccaaaacc catcaggaca gatgtgtcag gtatgatact
3241 ggaggaggga gcgcctgaag gcactgttgc caccatactc atcaaaagaa ccactggaga
3301 gctgatgcct ctcgcagcaa gaatgggcac ccacgcgacc atgagaatac aaggacgcgc
3361 ggtgggcggc cagatgggaa tgctgctcac tgggtccaat gcaaagagca tggatcttgg
3421 caccacgccc ggtgattgtg ggtgtcccta catttacaaa aggggcaacg actacatagt
3481 cattggagtt cacacagcag ccgctcgtgg cggaaacact gtcatctgcg ccacacaggg
3541 tagtgagggt gaggccacgc tcgagggtgg tgacaacaaa ggaacatact gtggggcgcc
3601 aatcctaggc cccgggaatg ccccaaaact gagcaccaaa accaaattct ggaggtcctc
3661 cacaacacca cttccacccg gcacatacga gccggcatat ttgggaggaa aagacccccg
3721 agtcaaaggt gggccatctc tgcaacaagt tatgcgagac caactgaagc cattcaccga
3781 accccgtggt aagccaccaa aaccaagtgt cctcgaagct gctaaaaaga caattatcaa
3841 tgtgctagag caaacaatag accccccaca aaagtggacg tacgcacaag cgtgcgcgtc
3901 tcttgacaaa actacatcta gtgggtaccc ccaccacgtg cgcaaaaacg agcactggaa
3961 tggggaatct ttcacaggaa aattggctga ccaggcatca aaagcaaacc taatgtttga
4021 agaggggaag cacatgaccc cagtttacac agctgccctt aaggatgaat tggtcaaaac
4081 tgagaaagtg tatgggaaga taaagaagag gttgctttgg ggctctgacc tggctaccat
4141 ggtgcggtgc gcgcgctcct ttggcggttt gatggacgaa ctcaaggccc actgtgtgac
4201 acttccgata agggttggca tgaatatgaa tgaagatgga ccaatagtct ttgagaagca
4261 ctccagatac aggtatcact atgatgcaga ttattccagg tgggattcaa cacagcagag
4321 agccgttctg gccgcggcca tggagattat ggttaaattc tcagcagagc cacaactagc
4381 ccaaatagtt gcagaggatc tattgtcgcc tagcgtagtt gacgtgggcg acttcaaaat
4441 ttccatcaac gaaggattgc catcgggtgt cccttgcacc tctcaatgga attccatcgc
4501 acactggctc ctcaccttat gtgccctttc tgaagttaca gacctctctc ctgacattgt
4561 gcaggccaac tccctcttct ccttttatgg tgatgatgaa attgtgagca cagatatcaa
4621 attagaccca gaaaagctga cggggaagtt gagagaatat ggcctcaaac ccactcgtcc
4681 agacaaaact gaaggccccc tgatcattag tgaggatctg aatggcctga ctttcctgag
4741 gagaaccgtc actcgcgacc ctgcaggatg gtttggcaaa ctggaccaaa gttccatact
4801 taggcaattg tattggacca aaggccccaa tcatgaagat ccctttgagt caatgattcc
4861 acactcccag agacccatac aactcatgtc actcttgggc gaagcagcac tgcatgaacc
4921 atcattctac agcaagatca gcaagcttgt gatatctgag ttgaaagaag gtggaatgga
4981 tttttacgtg cccaggcaag aacctatgtt caggtggatg agattctcag atttgagcac
5041 gtgggagggc gatcgcaatc ttgctcccag tcttgtgaat gaagatggcg tcgattgacg
5101 ccgctccatc tactgatggt gcagccggcc tcgtgccaga aagtaataat gaggtcatgg
5161 ctcttgaacc cgtggctggc gccgccttgg cagccccggt caccggtcaa acaaatatta
5221 tagacccttg gattagagca aattttgtcc aggcccctaa tggtgaattt acagtctctc
5281 cccgtaatgc ccctggtgaa gtgctattga atctagagtt gggtccagaa ttaaatcctt
5341 atctggcaca tttagcaaga atgtacaacg ggtatgccgg tgggatggag gtgcaggtca
5401 tgttggctgg gaacgcgttc acagccggca agttggtctt cgccgctgtg ccacctcact
5461 tcccggttga aaaccttagt ccacagcaaa ttaccatgtt ccctcatgtg attatagatg
5521 taaggacttt ggaacctgtt ttattaccac tccctgatgt tagaaataat ttcttccatt
5581 ataatcagaa agatgatccc aagatgagaa ttgtggctat gctttatacc ccccttaggt
5641 ctaatggttc aggtgatgat gtgtttacag tctcctgcag ggtgttgact agaccctccc
5701 ctgattttga tttcacatat ctggtgccac caacagtgga gtctaaaaca aaaccattta
5761 ccctcccaat cctcacactt ggggaacttt ccaattctag attcccagtg tccatagacc
5821 agatgtacac cagccccaat gaagttatat cagtgcagtg tcaaaatggt aggtgcacac
5881 tggatgggga gctccaagga acaacacaac tccaagtcag tggcatttgt gctttcaagg
5941 gagaagtgac cgcccatttg catgacaatg atcatctata taatgtcacc atcacaaact
6001 tgaatgggtc cccctttgac ccctccgagg acatccctgc ccctctgggc gtacctgact
6061 ttcagggaag ggtctttggt gtcatctccc aaagagacaa acacaattcc cctggacata
6121 atgaaccagc aaataggggg cacgacgctg tggtccctac ttacacatca cagtacactc
6181 caaaattggg tcagattcaa attggcacat ggcaaaccga tgatcttaca gtcaaccaac
6241 cagtcaaatt caccccagtt ggactcaatg acactgaaca ttttaaccaa tgggtggtcc
6301 ccagatatgc cggtgctcta aaccttaaca caaaccttgc cccttctgtt gctccagtat
6361 ttccagggga gcgcctgctc tttttcagat catacatccc cctcaagggt ggttatggaa
6421 atccagccat tgattgccta ctaccacaag agtgggtgca gcatttctat caggaagcag
6481 ccccttcaat gagtgaggtg gcccttgtca gatacatcaa cccggatact ggtcgggcac
6541 tgtttgaggc caaactccac agagctggtt tcatgacagt ctcaagcaac accagtgccc
6601 cggtggttgt gcctgccaac ggatacttca gatttgattc ttgggtgaac caattctatt
6661 ctctcgcccc catgggaact ggaaatgggc gtagaagggt tcaataatgg ctggagcttt
6721 tgtagctggt cttgcagggg acgtgctcag caatgggctc agttcattaa ttaatgcagg
6781 tgctaatgca ataaatcaga gggcagaatt tgattttaat cagagattac agcaaaattc
6841 ttttaatcat gataaggaga tgttgcaggc tcagattcag gcaactaagc agctgcaggc
6901 agacatgatg gctataaagc agggggtcct gaccgctggc ggcttttccc ctgctgacgc
6961 agccagaggt gctgtgaatg cgcccatgac acaggcgctg gattggaacg gcacaaggta
7021 ttgggcacca ggctccatga ggaccacatc ttactctgga agattcacat caaccgcccc
7081 agtgaggcag gccgacttcc agcacaccca aagccggccc tcgagtggct cttctgtgtc
7141 ctcctttgct actcagtctt caaggccaac tctgactaca accactgggt cctcacatga
7201 cacagcctca tcaaactcga ctcgcaacac aaacctctcc caatcaacgg tctctagggc
7261 cacatctagg actggtgagt gggttagaga tcaaaataga aatttggaac cctatatgca
7321 tggtgcctta cagacagcct ttgtcacccc accttccagc agggcgtctg acggaacggt
7381 ctcaaccgtc ccaaaaggtg ttttggactc ctggacacct gcgttcaaca cccgcaggca
7441 gccgcttttt gcacacctcc gtaagagggg ggagtcacaa gcttagtgaa aaggtgaaaa
7501 tttatctaaa atgaattgtt ctt
//