Typing tool
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Typing tool
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Complete norovirus genomes
| LC209440 | GII.2 | |
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| GII.P2 |
ORF1: 1..5090
ORF2: 5071..6699
ORF3: 6699..7478
LOCUS LC209440 7519 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2015/GII.P2_GII.2/Saitama-169 RNA, nearly
complete genome.
ACCESSION LC209440
VERSION LC209440.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2015/GII.P2_GII.2/Saitama-169
ORGANISM Norovirus Hu/GII/JP/2015/GII.P2_GII.2/Saitama-169
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 7519)
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..7519
/organism="Norovirus
Hu/GII/JP/2015/GII.P2_GII.2/Saitama-169"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2015/GII.P2_GII.2/Saitama-169"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934266"
/country="Japan: Saitama"
/collection_date="2015"
/note="genotype: GII.P2_GII.2"
gene <1..5090
/gene="POL"
CDS <1..5090
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BBB86938.1"
/translation="SNDASAAAAVNSNDDNTKSSSDGMLNNMAVTLKRALGARPKQPV
PREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPEANT
AFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISIAKV
ELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLSR
RMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLKPL
NILNILASCDWTFAGIVESLILFAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKI
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRD
FPGQPDMWKDAYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLL
HERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMKVGNQLRNVTTMDELK
KAIKNITIRKCQIVYGGNTYTLESDGKGKVVVERVQNASVQINNEIAGAVHHLRCARI
RYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNFWSRPLTEDADEATMKEGCPKPR
EEEEFIVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGSE
IRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVAT
ILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGNEGEATLEGGDNKGTYCGAPILGPGNA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGFPHHVRKNEHWNGES
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLATMV
RCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQQ
RAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYGL
KPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHED
PFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSLVNEDGVE"
gene 5071..6699
/gene="VP1"
CDS 5071..6699
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB86939.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6699..7478
/gene="VP2"
CDS 6699..7478
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB86940.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPVRQADLQHTQSRLSSGSSVSSFATQSSRPTLATTT
GSSHGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 cgtctaacga cgcttctgct gccgctgctg ttaacagcaa cgacgacaac acaaaatctt
61 caagtgacgg aatgcttaac aacatggccg tcacccttaa acgagccctt ggggcccggc
121 ccaaacagcc ggtcccgagg gagaaacccc caagaccccc tagaccacca acaccagaat
181 tgatcaaaag aatccccccc ccaccaccca atgatgggga cgaaccaacc gtgatgttta
241 gcactgtagg tggtgtgtct ggcctacctg agctcacaac agttggtcaa ccacctgaag
301 ctaacacagc ctttagtgtg cctcccctca gccaaaggga gaatagggac gctaaggaac
361 cgttaactgg aaccattctg gaaatgtggg atggggagat ctatcattat ggtctgtatg
421 tggaaaaagg gcttgtgtta ggcgtgcaca agccgccggc tgccatcagc atagccaaag
481 tggagttaac gcccctctca ctgtactgga ggcctgttta cacgcctcag taccttatat
541 ctcctgacac cttgaggaaa ctccatggtg aattatttcc ctacacagcc tttgaaaaca
601 attgttatgc cttctgctgt tgggttttgg accttaacga ttcatggcta agcagaagga
661 tgattagcag gactactggc tttttcaggc cctaccaaga gtggaacagg aagcccctcc
721 caactatgga tgactcaaaa ttgaagaagg tcgcaaacat cgttctgtgt gcattgtcat
781 cattgttcac tagacccatt aaggacataa ttggtaaact taaacccctc aacatcctaa
841 acatcctggc ctcatgcgac tggacctttg ctggcatagt agagtcacta atcctctttg
901 ctgaactctt tgatgtgttc tggacacccc cagatgtgtc tgcaatgatc gcacccctcc
961 tcggtgacta cgagctgcaa ggtcccgaag acatcgctgt ggagctcgtg cccgttgtta
1021 tgggtgggat aggcttggtg ttgggattca ccaaagagaa aataggcaag atgctctcct
1081 ctgcagcatc aactctgagg gcatgtaaag atcttggagc ctacggattg gagatcctga
1141 aactagtcat gaaatggttt ttcccaaaga aggatgaggc caacgaactg gctatggtta
1201 gagccattga agacgctgta ttagacttgg aggccattga gaacaaccac atgaccaccc
1261 tattgaaaga caagaacagc cttgcagcct acatgaagac cctggacatg gaagaggaaa
1321 aagctaggaa gctgtccacc aaatcagcct cccccgacat tgtgggcact ataaacgccc
1381 tgctggctag gatcgctgcc gcacgttcct tggttcatag ggccaaggaa gagctctcca
1441 gcagaccaag gccagtcgtc ctgatgatct ccggcaaacc agggatagga aagacccatt
1501 tggccagaga actggcaaag aaaattgcct caacactcac aggagatcaa agggtgggcc
1561 tcatcccacg gaatggagtt gaccattggg acgcctacaa aggagagaga gtggtgctct
1621 gggatgacta tgggatgagc aaccccattc acgatgcact gaggttgcag gaattggcag
1681 acacatgtcc actaactctg aattgtgaca ggattgaaaa caaggggaaa gtcttcgaca
1741 gcgacgcaat cataattacc accaatttgg tcaatcccgc gccgctggat tatgtcaact
1801 ttgaggcctg ctccagacgt atagacttcc ttgtgtatgc tgatgcccca gaagtcgaga
1861 aagcaaagcg ggactttccc ggtcaaccgg acatgtggaa ggacgcctat cgacctgact
1921 tctcacatat taaattgcaa cttgcaccac aaggtgggtt cgacaagaat ggcaacaccc
1981 cacatggtaa aggagtgatg aagactctca ctgccagttc gctggttgcg cgtgcctctg
2041 gtctcttgca tgagagatta gatgagtacg agttacaggg cccgcccctt tcaaccttca
2101 actttgaccg caacaaaatt gcagcgttca gacaacttgc cgctgaaaac aagtatggtc
2161 tagtggacac gatgaaggtg ggcaaccagc tcagaaatgt cacgaccatg gatgagctca
2221 agaaggctat caagaacatc acaatcagga agtgccagat agtctatggt ggcaacactt
2281 acacgcttga atctgacggc aagggtaagg ttgtagttga gagggtgcag aacgccagcg
2341 tgcaaatcaa caatgagatc gctggtgcag tacatcacct tagatgtgcc aggataaggt
2401 attatgtcaa gtgtgttcaa gaggccatct actcactcct ccaaatcgcc ggcacggtgt
2461 ttgtgacttc acgcatcgta agccgcatga acatccaaaa tttttggtcc agaccattaa
2521 ctgaagatgc agatgaggcc accatgaaag aggggtgccc taaacctagg gaagaagagg
2581 agtttatcgt ctcttcagat gatatcaagc cagagggcaa gaaaggcaaa aacaagagtg
2641 gccggggcaa gaaacacacg gcattctcga gcaaaggtct cagtgatgag gaatatgaag
2701 agtacaaaag gatcagagag gagaggaatg gcaagtactc catagaggaa tacctacagg
2761 acagagacaa atattatgaa gaggtggcca ttgccagggc aactgaagaa gacttctgcg
2821 aagaagaaga ggttaagatt cgtcagagga tcttcaggcc aacaagaaaa caacgcaagg
2881 aagaaagagc caaccttggc cttgttaccg gatctgagat caggaaaagg aacccagatg
2941 acttcaagcc aaaaggaaag ctgtgggctg acgatgatag gagcgtcgac tacaatgaaa
3001 gaatcagctt tgaggcccca ccaagcattt ggtctagaat tgtcaacttt ggttctggat
3061 gggggttttg ggtatcgccc agcctcttca taacatcaac acatgtcata cctcaaggca
3121 taactgaggc ctttggtgta cccataaggc aggtgcaaat acacaaatca ggcgaattct
3181 gtcgactgag attcccaaaa cccatcagga cagatgtgtc aggtatgata ctggaggagg
3241 gagcgcctga aggcactgtt gccaccatac tcatcaaaag aaccactgga gagctgatgc
3301 ctctcgcagc aagaatgggc acccacgcga ctatgaggat acaagggcgc acagtgggcg
3361 gccagatggg gatgctgctt actgggtcca acgcaaagag catggatctt ggcaccacgc
3421 ccggtgactg tgggtgcccc tacatttaca aaaggggcaa tgactacata gtcattggag
3481 ttcacacagc agccgctcgt ggcggaaaca cagtcatctg cgccacacaa ggtaatgagg
3541 gtgaggccac actcgagggt ggtgacaata aaggaacata ctgcggggca ccaatcctag
3601 gccccgggaa tgccccaaaa ctgagcacta aaaccaagtt ctggaggtcc tccacaacgc
3661 cactcccacc cggcacgtac gagccggcat acctaggagg aaaagacccc cgagtcaaag
3721 gtggaccatc tctgcaacaa gttatgcgag accaactgaa gccattcacc gaaccccgtg
3781 gtaagccacc aaaaccaagc gtccttgaag ctgctaaaaa gacaattatc aatgtgctag
3841 aacaaacaat agatccccca caaaaatgga cgtacgcgca agcgtgcgcg tctctcgaca
3901 aaaccacatc tagtgggttc ccccaccacg tgcgcaaaaa cgagcactgg aatggggaat
3961 ctttcacagg aaaattggct gaccaagcat caaaagcaaa cttaatgttt gaagagggga
4021 agcacatgac cccagtttat acagctgccc ttaaggatga gctggtcaaa actgagaaag
4081 tgtatggaaa aataaagaag aggttgcttt ggggctctga tctggccacc atggtgcggt
4141 gcgcacgctc ctttggcggt ttgatggacg aactcaaggc ccactgtgtg acacttccga
4201 taagggttgg catgaacatg aatgaagatg ggccaatagt ctttgagaaa cactccagat
4261 ataggtacca ctatgatgca gactattcca ggtgggactc aacacagcag agagccgttc
4321 tggccgcggc catggagatt atggttaaat tctcagcaga accacaacta gcccaaatag
4381 ttgcagagga tctattgtcg cctagtgtag ttgacgtggg cgacttcaaa atttccatca
4441 atgaagggtt gccatcgggt gttccttgca cctctcaatg gaactccatc gcacattggc
4501 tccttacttt gtgtgccctt tctgaagtta cagacctctc tcctgacatt atacaagcca
4561 actccctctt ctccttctat ggagatgatg aaattgtgag cacagatatt aaattagacc
4621 cagaaaagct gacgggaaag ttgagagaat atggtctcaa acctactcgt cctgacaaaa
4681 ctgagggccc cctggtcatt agtgaggacc tgaatggcct gactttcctg aggagaaccg
4741 tcacccgcga tcccgcggga tggtttggca aactagacca aagctccata cttaggcaat
4801 tgtattggac taaaggcccc aatcatgaag acccctttga gtcaatgatt ccacactccc
4861 agagacccat acaactcatg tcacttttgg gcgaggcagc actgcatgaa ccatcatttt
4921 acagcaagat cagcaagctt gtgatatccg aattgaaaga aggtggaatg gatttttacg
4981 tgcccaggca agaacctatg ttcaggtgga tgaggttctc ggatttgagc acgtgggagg
5041 gcgatcgcaa tcttgctccc agtcttgtga atgaagatgg cgtcgaatga cgccgctcca
5101 tctactgatg gtgcagccgg cctcgtgcca gaaagtaata atgaggtcat ggctcttgag
5161 cccgtggctg gtgccgcttt ggcagccccg gtcactggtc agacaaatat tatagaccct
5221 tggattagag caaattttgt ccaggccccc aatggtgaat ttacagtttc tccccgtaat
5281 gcccctggtg aagtgctact gaatctggag ttgggtccag aactaaatcc ttatctggca
5341 cacttagcaa gaatgtataa cgggtacgcc ggtgggatgg aggtgcaggt catgctggct
5401 gggaacgcgt tcacagccgg taagttggtc ttcgccgccg tgccacctca cttcccggtt
5461 gaaaacctta gtccacaaca aattaccatg ttccctcatg tgattataga tgtgaggact
5521 ttggaacctg ttttactacc actccctgat gttagaaata atttcttcca ttacaatcag
5581 aaagatgatc ccaagatgag aattgtggct atgctttata ccccccttag gtctaatggc
5641 tcaggtgatg atgtgtttac agtctcctgt agggtgttaa ctagaccctc tcctgatttt
5701 gacttcacat atctggtgcc accaacagtg gaatctaaaa caaaaccatt caccctccca
5761 atcctcacac ttggggaact ttccaattct agattcccag tgtctataga ccagatgtac
5821 accagcccta atgaagttat atcagtgcag tgtcaaaatg gtaggtgcac attggacggg
5881 gagctccaag gaacaacaca acttcaagtc agtggcattt gtgctttcaa gggggaagtg
5941 accgcccact tacatgacaa tgatcaccta tacaatgtca ccatcacaaa cttgaatgga
6001 tccccttttg atccctctga ggacatcccc gcccctctgg gcgtacctga ctttcaggga
6061 agggtctttg gtgttatctc ccaaagagac aaacacaaca gccctggaca taatgaacca
6121 gcaaacaggg gacacgatgc tgtggtccct acttacacag cacagtacac tccaaaattg
6181 ggtcagattc aaattggcac atggcagacc gacgatctca ctgtcaacca accagtcaaa
6241 ttcaccccag ttggactcaa tgacactgaa catttcaacc aatgggtggt ccccagatat
6301 gctggtgccc taaacctcaa tacaaacctt gccccttctg ttgctccagt gtttccaggg
6361 gagcgcctac tcttcttcag atcatacatc cctctcaaag gtggctatgg aaatccagcc
6421 attgattgcc tactaccaca ggagtgggtg caacacttct atcaggaggc agccccctca
6481 atgagtgagg tggcccttgt cagatacatc aacccggaca ctggtcgggc actgtttgag
6541 gccaagctcc acagagctgg tttcatgacg gtctcaagta acaccagtgc cccggtggtt
6601 gtgcctgcca atgggtactt cagatttgat tcttgggtga accaattcta ttctcttgcc
6661 cccatgggaa ctgggaatgg gcgtagaagg gttcaataat ggctggagct tttgtagctg
6721 gtcttgcagg ggacgtgctc agcaatgggc tcagttcact aattaatgca ggtgctaatg
6781 caataaatca gagggcagaa tttgatttta atcagagatt acaacaaaat tctttcaatc
6841 atgacaagga gatgttgcag gctcagattc aggcaactaa gcagctgcaa gcagacatga
6901 tggctataaa gcagggggtc ttgaccgctg gcggcttttc ccctgctgat gcagccagag
6961 gtgcagtgaa tgcgcccatg acacaggcgc tggattggaa tggcacaagg tattgggcac
7021 caggctccat gaggaccaca tcttactctg ggaggttcac atcaaccgcc ccagtgaggc
7081 aggccgacct ccagcacacc caaagccggc tttcgagtgg ctcttctgtg tcctcctttg
7141 ccactcagtc ttcaagacca actttggcca caactactgg gtcctcacat ggcacagctt
7201 catcaaattc gacccgcagt actaacctct cccaatcaac agtttctaga gccacatcta
7261 gaactggtga gtgggttaga gaccaaaata gaaatttgga accctatatg catggtgcct
7321 tacagacagc ctttgtcacc ccaccctcca gtagggcgtc tgacgggaca gtctcaaccg
7381 tcccaaaagg tgttttggac tcctggacac ctgcgttcaa cactcgcagg cagccgcttt
7441 ttgcacacct ccgtaagagg ggggagtcac aagcttagtg aaaaggtgaa aatttatcta
7501 aaatgaattg atcttacct
//