Typing tool
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Typing tool
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Complete norovirus genomes
| LC209478 | GII.2 | |
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| GII.P16 |
ORF1: 1..5090
ORF2: 5071..6699
ORF3: 6699..7478
LOCUS LC209478 7518 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2012/GII.P16_GII.2/Ehime-46 RNA, nearly
complete genome.
ACCESSION LC209478
VERSION LC209478.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2012/GII.P16_GII.2/Ehime-46
ORGANISM Norovirus Hu/GII/JP/2012/GII.P16_GII.2/Ehime-46
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 7518)
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..7518
/organism="Norovirus
Hu/GII/JP/2012/GII.P16_GII.2/Ehime-46"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2012/GII.P16_GII.2/Ehime-46"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934304"
/country="Japan: Ehime"
/collection_date="2012"
/note="genotype: GII.P16_GII.2"
gene <1..5090
/gene="POL"
CDS <1..5090
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BBB87052.1"
/translation="ASNDANVAVAYNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQS
APRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPDVA
NTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMA
KVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWL
NRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGKVK
PLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLEDYELQGPEDLA
VELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKK
EEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLSTKS
ASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAR
KVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPL
TLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAK
RDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASG
LLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTMEE
LKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHHLKHA
RIRYYVRCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNESEAKEEAPKS
EDDEFIISSKDIKEEGKKGKNKTGRGRKHTAFSSKGLSDEEYDEYKRIREERNGKYSI
EEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTGSE
IRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFI
TSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVAT
VLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGA
PKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNGET
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLSTMI
RCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQ
RAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHED
PNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5071..6699
/gene="VP1"
CDS 5071..6699
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87053.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVSQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6699..7478
/gene="VP2"
CDS 6699..7478
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87054.1"
/translation="MAGAFMAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSIAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTGLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA"
ORIGIN
1 tggcgtctaa cgacgctaac gttgccgttg cttacaacaa caacaacgac aaggaaaaat
61 cttcaggtga aggcttattc acaaatatgt cttccacctt aaagaaagcc ctcggggccc
121 ggcccaaaca gtccgccccg agggacaact cacaaaagcc cccaagacca ccaactcccg
181 agttggttaa gaggataccc cctcctccac ctaatggtga agaagaagag ccagtcatta
241 ggtatgaggt taagagtggg atctctggcc tgcccgagct cacaacagtc ccccaaccgg
301 atgtggccaa cacggcattc agtgtcccac cgctgagctt gagagaaaac agggaggcca
361 aggaaccgct gacaggggca atattagaga tgtgggatgg agagatatac cactatggcc
421 tgtacgtgga gaaaggctta gtgttgggtg tgcacaaacc acctgcagct ataagcatgg
481 caaaagtgga gctgacgccg ttgtcattgt actggcgcgt ggtctacacc ccccaatacc
541 tcatctcccc tgaaactctc aggaggctca acggagaggc attcccttac accgcctttg
601 acaacaattg ctatgccttt tgctgctggg tattagacct caatgactca tggcttaaca
661 ggaggatggt acaaagaaca acaggcttct tcagacctta ccaagagtgg aacagaaaac
721 ccctgcctac tatggatgac tccaaaatca agaaggtggc aaacatattc ctgtgttcat
781 tgtccacgtt gttcaccaga cctataaaag acctcatagg aaaagttaaa ccattaaaca
841 tcttgaacat cctggcaacg tgtgactgga cattcgccgg aatagtggag tctctgatat
901 tacttgctga actctttgga gttttctgga cacccccaga tgtgtctgct atgatcgctc
961 ccttacttga agactacgag ttgcaggggc cagaagacct cgccgttgag ctcgtacctg
1021 tggtaatggg agggattggt ttggtgttgg gattcaccaa agagaaaatt ggcaaaatgt
1081 tgtcctcagc agcatcaacg ctcagggctt gtaaggatct tggtgcctat ggcttagaga
1141 tactcaaatt ggtcatgaag tggttcttcc caaagaaaga agaggccaat gagctagcca
1201 tggtgagagc tatagaggat gctgtgttgg atcttgaggc aatagaaaat aatcacatga
1261 caactctgtt gaaagacaaa gacagcctag caacctacat gaaaacacta gacatggaag
1321 aggagaaagc cagaagattg tccacaaaat ctgcatcccc tgacatagtt gggacgatca
1381 acgccctgct ggctcgaata gcagcggcta ggtcattagt ccacagggcc aaggaggagt
1441 tatctagcag gataagacca gtagttgtta tgatatctgg caaaccaggg ataggtaaaa
1501 ctcatttggc cagggaggtg gcaagaaagg tggcctccac tctcacaggg gatcaaagag
1561 tcgggctcat accgagaaac ggtgtggacc actgggatgc atacaaaggt gagagagtcg
1621 tgctgtggga cgactatggc atgagcaacc ccattcatga tgctttgcgc atacaagaat
1681 tggctgatac gtgtcccctt accttaaact gcgacagaat tgaaaataag ggaaaagttt
1741 ttgacagtga agtcataata attacaacaa accttgccaa tccagctcca cttgattatg
1801 tcaactttga ggcctgttcc aggagaattg acttcctggt gtacgccgag gcaccagaag
1861 tagaaaaggc aaaacgagac tttcctggtc aaccagatat gtggaaggac gccttcaagt
1921 cggacttttc acatatcaag ttgcaacttg cacctcaagg cggctttgac aagaatggta
1981 acaccccaca tgggaaagga gtgatgaaga ccctcaccac cggttccctg attgcccgtg
2041 catcaggctt actgcatgag aggatggatg aatttgaact ccaaggcccc acagttacca
2101 ccttcaattt cgaccggaac agaatcaccg cattcagaca attggccgca gaaaacaagt
2161 atgggttggt ggacaccatg agagttggca atcaattaaa aggggtgaaa accatggaag
2221 aactcaaaca agcaatcaag aatgtgatca tcaagaggtg ccggatcatc tacggtggct
2281 ccacgtatga ccttgaatct gatggcaagg gcaaagtttt ggtagaaaag gtcaagaaca
2341 cctctataca gaccaacaac gagttggctg gagccctgca tcacctcaaa catgcccgga
2401 tcaggtatta tgtcagatgt gtgcaagaag cagtttactc tatcatacaa attgccggcg
2461 ctgcgtttgt caccacacgc attgcacgcc gcatgaacat acaagagctt tggtcgaagc
2521 caccattaga ccaaaatgaa tcagaggcta aggaagaggc ccccaagtca gaagatgacg
2581 agttcatcat atcttctaag gacatcaagg aggaaggaaa gaagggcaaa aacaaaactg
2641 gccgtggcag gaaacacact gcattctcta gcaagggctt gagcgatgag gagtatgacg
2701 agtacaagag gataagagaa gagagaaatg ggaagtactc tatagaggag tatcttcaag
2761 acagagacag gtactatgag gaactcgcca tcgccaaggc cacggaagaa gacttctgtg
2821 aggaggagga ggtcaaaatc cgtcagagga tcttccgtcc caccaggaaa caaaggaagg
2881 aagagagggc cacactagga ctagtaactg gttcagaaat cagaaaaaga aaccctgatg
2941 acttcaaacc taaagggaaa ctgtgggccg atgacaacag aagtgttgac tacaatgaga
3001 aactggactt tgaggctccc ccaagcatat ggtctaggat tgtgagtttt ggttctggtt
3061 ggggcttctg ggtatcacca agcctgttca taacatcaac tcatgtaatc cctgcaggca
3121 taacagaggc atttggagtc cccatcaaac aaatccaggt ccacaaatca ggtgaatttt
3181 gccggttcag attcccaaaa ccaattagac cagatgtgac aggaatgata ttggaagaag
3241 gtgcgcctga gggcaccgtg gcaaccgtac tcatcaaacg ccctaccgga gagctcatgc
3301 cccttgcagc cagaatgggg acacacgcaa ccatgaagat tcaaggccgc atggttggcg
3361 gacagatggg tatgttgctc actggttcaa atgctaaagg aatggatttg ggaacaactc
3421 ctggtgattg tggctgtccc tacatctaca aaaggggcaa tgactatata gtcattgggg
3481 tgcacacagc agcagcccgt ggtggaaaca ccgtcatctg tgccacacag ggaagtgagg
3541 gtgaggcaac tcttgagggt ggagatgaca aaggaacata ctgtggagca cccattctag
3601 gccccggggg ggcaccaaaa ttgagcacca aaaccaaatt ttggaggtca tcgaacacgc
3661 ctcttccacc agggacatat gagcctgcct acctcggtgg ccgtgacccg cgtgttaagg
3721 gtgggccctc cttgcagcag gtaatgagag accagttgaa accattcact gaacccaggg
3781 gtaaacctcc aagaccaagt gtgttggagg cagccaaaca aaccatcatc aatgtcctcg
3841 aacaaaccct ggaccctcca caaaaatgga catacgcaca ggcgtgtgct tcacttgaca
3901 aaaccacctc cagcgggcat ccccaccacg tccgaaagaa tgaattctgg aatggtgaga
3961 ccttcactgg taaattggca gaccaagcat caaaagcaaa tctgatgttt gaggaaggga
4021 aacacatgac accagtgtat acagcagccc tcaaggacga gctggtcaag actgacaagg
4081 tctatggaaa gatcaagaag agactgctct ggggctctga cttgtccacc atgatccggt
4141 gcgccaggtc ctttggtggg cttatggatg agatgaaggc acactgcata tcactcccag
4201 tccgagttgg catgaacatg aatgaagatg gtccaataat atttgagaag cactccagat
4261 acaagtacca ctatgatgca gactactccc gctgggattc aacacaacag agggcagtac
4321 tagcagcagc cttggaaatc atggtcaggt tctctgcaga gccacaattg gcacagatag
4381 tcgctgagga tctgttggcc cccagtgtag tagatgtagg agactttaaa atttcaataa
4441 atgaggggct cccctctggt gtaccatgca cttctcaatg gaattccatc gcacactggc
4501 tgctaaccct ctgtgccttg tctgaagtca ccaaactgtc ccctgacatt gtacaggcaa
4561 attccatgtt ctcattttac ggtgatgacg agattgtcag caccgatata aaattggacc
4621 ctgaaaagtt aaccaccaaa ttgaaggagt atggcctgaa accaactcgc ccagacaaaa
4681 ccgagggacc cctgatcatc agtgaggatt tgaatggact cactttcctc cggaggacgg
4741 tgactcgtga cccagctggc tggtttggaa aattggacca aagctcaata ttgaggcaga
4801 tgtactggac taggggacca aatcatgaag accccaatga gacaatgata ccccactctc
4861 aaagacccat acagctcatg gcactgcttg gtgaggcctc ccttcacgga ccctctttct
4921 acagcaaaat cagtaaattg gtcataactg aactcaaaga aggtgggatg gacttttacg
4981 tgccaagaca ggaacccatg ttcaggtgga tgaggttttc tgacttgagc acgtgggagg
5041 gcgatcgcaa tctggctccc aattttgtga atgaagatgg cgtcgaatga cgccgctcca
5101 tctactgatg gtgcagccgg cctcgtgcca gaaagtaaca atgaggtcat ggctcttgaa
5161 cccgtggctg gtgccgcctt ggcagcaccg gtcaccggtc aaacaaatat tatagaccct
5221 tggattagag caaattttgt ccaggccccc aatggcgaat ttacagtctc tccccgtaat
5281 gcccctggtg aagtgctatt aagtctagaa ttgggtccag aattaaatcc ttatctggca
5341 catttagcaa gaatgtacaa cgggtatgcc ggtgggatgg aggtgcaggt catgttggct
5401 gggaatgcgt tcacagccgg caagttggtc ttcgccgctg tgccacctca cttcccggtt
5461 gaaaacctta gcccacagca aattaccatg ttccctcatg tgattataga tgtaaggacc
5521 ttggaacctg ttttattacc actccctgat gttaggaata atttcttcca ttacaatcaa
5581 aaagatgatc ccaaaatgag aattgtggct atgctttata ccccccttag atctaatggt
5641 tcaggtgatg atgtgttcac agtttcctgc agggtgttga ccagaccctc ccctgatttc
5701 gatttcacat atctggtgcc accaacagtg gaatctaaaa caaaaccatt caccctccca
5761 atcctcacac ttggggaact ttccaattct aggttcccag tgtccataga tcagatgtac
5821 accagcccta atgaagttat atcagtgcag tgtcaaaatg gtaggtgcac attggacggg
5881 gaacttcaag ggacaacaca actccaagtc agtggcattt gtgctttcaa gggggaagtg
5941 accgcccatt tgcatgacaa tgatcaccta tacaatgtca ccatcacaaa cttgaatggg
6001 tccccttttg acccctccga ggacgttcct gcccctctgg gcgtgcctga tttccaggga
6061 agggtctttg gtatcatctc ccaaagagac aaacataata gccctgggca taatgaacca
6121 gcaaacaggg gacacgacgc tgtggtccct acttacacag cacagtacac tccaaaattg
6181 ggccagattc aaattggcac atggcagacc gatgatctta cagtcagcca accagtcaag
6241 ttcaccccag ttggactcaa tgacactgaa cattttaatc aatgggtggt ccccagatac
6301 gctggtgccc taaacctcaa cacaaacctt gccccttctg ttgctccggt atttccaggg
6361 gagcgcttgc ttttcttcag atcatacgtt cccctcaagg gtggttatgg aaatccagcc
6421 attgattgcc tattaccaca agagtgggtg caacacttct atcaggaagc tgccccatca
6481 atgagtgagg tggcccttgt cagatacatc aacccggata ctggtcgggc actgtttgag
6541 gccaagctcc acagagctgg tttcatgaca gtctcgagca acaccagtgc cccggtggtt
6601 gtgcctgcca atgggtactt cagatttgac tcttgggtta atcagttcta ttctctcgcc
6661 cccatgggaa ctggaaatgg gcgtagaagg gttcaataat ggctggagcg tttatggctg
6721 gtcttgcagg ggacgtgctc agcaatgggc tcagttcatt aatcaatgca ggtgctaatg
6781 caataaatca gagggcagaa tttgatttta atcagaaatt acagcaaaat tctttcaatc
6841 atgataagga gatgttgcag gcccagattc aggcaactaa gcagctgcag gcagacatga
6901 tggctataaa acagggggtc ctgaccgctg gcggcttttc ccctgctgat gcagccagag
6961 gtgctgtgaa tgcgcccatg acacaggcgc tggattggaa cggcacaagg tattgggcac
7021 caggctctat gaggaccaca tcttattctg gaaaattcac atcaatcgcc ccagtgaggc
7081 aggccgactt tcagcacacc caaagccggc cttcgagtgg ctcttctgtg tcctcctttg
7141 ccactcagtc ttcaaggcca actctgacca caaccactgg gtcctcacat ggcacagcct
7201 catcaaattc aactcgcagc acaggccttt cccaatcaac ggtctctaga gctacatcta
7261 ggactagtga gtgggttagg gatcaaaata gaaatttgga accctacatg catggtgcct
7321 tacagacggc ctttgtcacc ccaccttcca gcagggcgtc tgacgggaca gtctcaaccg
7381 tcccaaaagg tgttttggac tcctggacac ctgcgttcaa cacccgcagg cagccgctct
7441 ttgcacacct ccgtaagagg ggggagtcac atgcctagtg aaaaggtgaa aatttgttta
7501 gaataaattg attctacc
//