Typing tool
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Typing tool
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Complete norovirus genomes
| LC209460 | GII.2 | |
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| GII.P16 |
ORF1: 1..5096
ORF2: 5077..6705
ORF3: 6705..7484
LOCUS LC209460 7528 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2010/GII.P16_GII.2/Kanagawa-50 RNA, nearly
complete genome.
ACCESSION LC209460
VERSION LC209460.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2010/GII.P16_GII.2/Kanagawa-50
ORGANISM Norovirus Hu/GII/JP/2010/GII.P16_GII.2/Kanagawa-50
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 7528)
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..7528
/organism="Norovirus
Hu/GII/JP/2010/GII.P16_GII.2/Kanagawa-50"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2010/GII.P16_GII.2/Kanagawa-50"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934286"
/country="Japan: Kanagawa"
/collection_date="2010"
/note="genotype: GII.P16_GII.2"
gene <1..5096
/gene="POL"
CDS <1..5096
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BBB86998.1"
/translation="KMASNDANVAVAYNNNNDKEKSSGEGLFTNMSSTLKKALGARPK
QSAPRDNSQKPPRPPTPELVKRIPPPPPNGEEEEPVIRYEVKSGISGLPELTTVPQPD
VANTAFSVPPLSLRENREAKEPLTGAILEMWDGEIYHYGLYVEKGLVLGVHKPPAAIS
MAKVELTPLSLYWRVVYTPQYLISPETLRRLNGEAFPYTAFDNNCYAFCCWVLDLNDS
WLNRRMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDLIGK
IKPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLEDYELQGPED
LAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDMEEEKARRLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREV
ARKVASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTC
PLTLNCDRIENKGKVFDSEVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKDAFKSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERMDEFELQGPTVTTFNFDRNRITAFRQLAAENKYGLVDTMRVGNQLKGVKTM
EELKQAIKNVIIKRCRIIYGGSTYDLESDGKGKVLVEKVKNTSIQTNNELAGALHHLK
HARIRYYVRCVQEAVYSIIQIAGAAFVTTRIARRMNIQELWSKPPLDQNEPEAKEEAP
KSEDDEFIISSKDIKEEGKKGKNKTGRGRKHTAFSSKGLSDEEYDEYKRIREERNGKY
SIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRKEERATLGLVTG
SEIRKRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSL
FITSTHVIPAGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTV
ATVLIKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCG
CPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPG
GAPKLSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRG
KPPRPSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHVRKNEFWNG
ETFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKVYGKIKKRLLWGSDLST
MIRCARSFGGLMDEMKAHCISLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDST
QQRAVLAAALEIMVRFSAEPQLAQIVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQ
WNSIAHWLLTLCALSEVTKLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLKEY
GLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNH
EDPNETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPM
FRWMRFSDLSTWEGDRNLAPNFVNEDGVE"
gene 5077..6705
/gene="VP1"
CDS 5077..6705
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB86999.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLSLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNLFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDVPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYVPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6705..7484
/gene="VP2"
CDS 6705..7484
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87000.1"
/translation="MAGAFMAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGKFTSIAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTGLSQSTVSRATSRTSEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESHA"
ORIGIN
1 tgaagatggc gtctaacgac gctaacgttg ccgttgctta caacaacaac aacgacaagg
61 aaaaatcttc aggtgaaggc ttattcacaa atatgtcttc caccttaaag aaagccctcg
121 gggcccggcc caaacagtcc gccccgaggg acaactcaca aaagccccca agaccaccaa
181 ctcccgagtt ggttaagagg ataccccctc ccccacctaa tggtgaagaa gaagagccag
241 tcattaggta tgaggttaag agtgggatct ctggcctgcc cgagctcaca acagtccccc
301 aaccggatgt ggccaacacg gcattcagtg tcccaccgct gagcttgaga gaaaacaggg
361 aggccaagga accgctgaca ggggcaatat tagagatgtg ggatggagag atataccact
421 atggcctgta cgtggagaaa ggcttagtgt tgggtgtgca caaaccacct gcagctataa
481 gcatggcaaa agtggagctg acgccgttgt cattgtactg gcgtgtggtc tacacccccc
541 aatacctcat ctcccctgaa actctcagga ggctcaacgg agaggcattc ccttacaccg
601 cctttgacaa caattgctat gccttttgct gctgggtatt agacctcaat gactcatggc
661 ttaacaggag gatggtacaa agaacaacag gcttcttcag accttaccaa gagtggaaca
721 gaaaacccct gcctactatg gatgactcca aaatcaagaa ggtggcaaac atattcctgt
781 gttcattgtc cacgttgttc accagaccta taaaagacct cataggaaaa attaaaccat
841 taaacatctt gaacatcctg gcaacgtgtg actggacatt cgccggaata gtggagtctc
901 tgatattact tgctgaactc tttggagttt tctggacacc cccagatgtg tctgctatga
961 tcgctccctt acttgaagac tacgagttgc aagggccaga agacctcgcc gttgagctcg
1021 tacctgtggt aatgggaggg attggtttgg tgttgggatt caccaaagag aaaattggca
1081 aaatgttgtc ctcagcagca tcaacgctca gggcttgtaa ggatcttggt gcctatggct
1141 tagagatact caaattggtc atgaagtggt tcttcccaaa gaaagaagag gccaatgagc
1201 tagccatggt gagagctata gaggatgctg tgttggatct tgaggcaata gaaaataatc
1261 acatgacaac tctgttgaaa gacaaagaca gcctagcaac ctacatgaaa acactagaca
1321 tggaagagga gaaagccaga agattgtcca caaaatctgc atcccctgac atagttggga
1381 cgatcaacgc cctgctggct cgaatagcag cggctaggtc attagtccac agggccaagg
1441 aggagttatc tagcaggata agaccagtag ttgttatgat atctggcaaa ccagggatag
1501 gtaaaactca tttggccagg gaggtggcaa gaaaggtggc atccactctc acaggggatc
1561 aaagagtcgg gctcataccg agaaacggtg tggaccactg ggatgcatac aaaggtgaga
1621 gagtcgtgct gtgggacgac tatggcatga gcaaccccat tcatgatgct ttgcgcatac
1681 aagaattggc tgatacgtgt ccccttacct taaattgcga cagaattgaa aataagggaa
1741 aagtttttga cagtgaagtc ataataatta caacaaacct tgccaatcca gctccacttg
1801 attatgtcaa ctttgaggcc tgttccagga gaattgactt cctggtgtac gccgaggcac
1861 cagaagtaga aaaggcaaaa cgagactttc ctggtcaacc agatatgtgg aaggacgcct
1921 tcaagtcgga cttttcacat atcaagttgc aacttgcacc tcagggcggc tttgacaaga
1981 atggtaacac cccacatggg aaaggagtga tgaagaccct caccaccggt tccctgattg
2041 cccgtgcatc aggcttactg catgagagga tggatgaatt tgaactccaa ggccccacag
2101 ttaccacctt caatttcgac cggaacagaa tcaccgcatt cagacaattg gccgcagaaa
2161 acaagtatgg gttggtggac accatgagag ttggcaatca attaaaaggg gtgaaaacca
2221 tggaagaact caaacaagca atcaagaatg tgatcatcaa gaggtgccgg atcatctatg
2281 gtggctccac gtatgacctt gaatctgatg gcaagggcaa agttttggtg gaaaaggtca
2341 agaacacctc tatacagacc aacaacgagt tggctggagc cctgcatcac ctcaaacacg
2401 cccgaatcag gtattatgtc agatgtgtgc aagaagcagt ttactctatc atacaaattg
2461 ccggcgctgc gtttgtcacc acacgcattg cacgccgcat gaacatacaa gagctttggt
2521 cgaagccacc attagaccaa aatgaaccag aggctaagga agaggccccc aagtcagaag
2581 atgacgagtt catcatatct tctaaggaca tcaaggagga aggaaagaag ggcaaaaaca
2641 aaactggccg tggcaggaaa cacactgcat tctctagcaa gggcttgagc gatgaggagt
2701 atgacgagta caagaggata agagaagaga gaaatgggaa gtactctata gaggagtatc
2761 ttcaagacag agacaggtac tatgaggaac tcgccatcgc caaggccacg gaagaagact
2821 tctgtgagga ggaggaggtc aaaatccgtc agaggatctt ccgtcccacc aggaaacaaa
2881 ggaaggaaga gagggctaca ctaggactag taactggttc agaaatcaga aaaagaaacc
2941 ctgatgactt caaacctaaa gggaaactgt gggccgatga caacagaagt gttgactaca
3001 atgagaaact ggactttgag gcccccccaa gcatatggtc taggattgtg agttttggtt
3061 ctggttgggg cttctgggta tcaccaagcc tgttcataac atcaactcat gtaatccctg
3121 caggcataac agaggcattt ggagtcccca tcaaacaaat ccaggtccac aaatcaggtg
3181 aattttgccg gttcagattc ccaaaaccaa ttagaccaga tgtgacagga atgatattgg
3241 aagaaggtgc gcctgagggc accgtggcaa ccgtactcat caaacgccct accggagagc
3301 tcatgcccct tgcagccaga atggggacac acgcaaccat gaagattcaa ggccgcatgg
3361 ttggcggaca gatgggtatg ttgctcactg gttcaaatgc taaaggaatg gatttgggaa
3421 caactcctgg tgattgtggc tgtccctaca tctacaaaag gggcaatgac tatatagtca
3481 ttggggtgca cacagcagca gcccgtggtg gaaacaccgt catctgtgcc acacagggaa
3541 gtgagggtga ggcaactctt gagggtggag atgacaaagg aacatactgt ggagcaccca
3601 ttctaggccc cgggggggca ccaaaattga gcaccaaaac caaattttgg aggtcatcga
3661 acacgcctct tccaccaggg acatatgagc ctgcctacct cggtggccgt gacccgcgtg
3721 ttaagggtgg gccctccttg cagcaggtaa tgagagacca gttgaaacca ttcactgaac
3781 ccaggggtaa acctccaaga ccaagtgtgt tggaggcagc caaacaaacc atcatcaatg
3841 tcctcgaaca aaccctggac cctccacaaa aatggacata cgcacaggcg tgtgcttcac
3901 ttgacaaaac cacctccagc gggcatcccc accacgtccg aaagaatgaa ttctggaatg
3961 gtgagacctt cactggtaaa ttggcagacc aagcatcaaa agcaaatctg atgtttgagg
4021 aagggaaaca catgacacca gtgtatacag cagccctcaa ggacgagctg gtcaagactg
4081 acaaagtcta tggaaagatc aagaagagac tgctctgggg ctctgacttg tccaccatga
4141 tccggtgcgc caggtccttt ggtgggctta tggatgagat gaaggcacac tgcatatcac
4201 tcccagtccg agttggcatg aacatgaatg aagatggtcc aataatattt gagaagcact
4261 ccagatacaa gtaccactat gatgcagact actcccgctg ggattcaaca caacagaggg
4321 cagtactagc agcagccttg gaaatcatgg tcaggttctc tgcagagcca caattggcac
4381 agatagtcgc tgaggatctg ctggccccca gtgtggtaga tgtaggagac tttaaaattt
4441 caataaatga ggggctcccc tctggtgtac catgcacttc tcaatggaat tccatcgcac
4501 actggctgct aaccctctgt gccttgtctg aagtcaccaa actgtcccct gacattgtac
4561 aggcaaattc catgttctca ttttacggtg atgacgagat tgtcagcacc gatataaaat
4621 tggaccctga aaagttaacc accaaattga aggagtatgg cctgaaacca actcgcccag
4681 acaaaaccga gggacccctg atcatcagtg aggatttgaa tggactcact ttcctccgga
4741 ggacggtgac tcgtgaccca gctggctggt ttggaaaatt ggaccaaagc tcaatattga
4801 ggcagatgta ctggactaga ggaccaaatc atgaagaccc caatgagaca atgatacccc
4861 actctcaaag acccatacag ctcatggcac tgcttggtga ggcctccctt cacggaccct
4921 ctttctacag caaaatcagt aaattggtca taactgaact caaagaaggt gggatggact
4981 tttacgtgcc aagacaggaa cccatgttca ggtggatgag gttttctgac ttgagcacgt
5041 gggagggcga tcgcaatctg gctcccaatt ttgtgaatga agatggcgtc gaatgacgcc
5101 gctccatcta ctgatggtgc agccggcctc gtgccagaaa gtaacaatga ggtcatggct
5161 cttgaacccg tggctggtgc cgccttggca gcaccggtca ccggtcaaac aaatattata
5221 gacccttgga ttagagcaaa ttttgtccag gcccccaatg gcgaatttac agtctctccc
5281 cgtaatgccc ctggtgaagt gctattaagt ctagaattgg gtccagaatt aaatccttat
5341 ctggcacatt tagcaagaat gtacaacggg tatgccggtg ggatggaggt gcaggtcatg
5401 ttggctggga atgcgttcac agccggcaag ttggtcttcg ccgctgtgcc acctcacttc
5461 ccggttgaaa accttagccc acagcaaatt accatgttcc ctcatgtgat tatagatgta
5521 aggaccttgg aacctgtttt attaccactc cctgatgtta ggaataatct cttccattat
5581 aatcagaaag atgatcccaa aatgagaatt gtggctatgc tttatacccc ccttagatct
5641 aatggttcag gtgatgatgt gttcacagtt tcctgcaggg tgttgaccag accctcccct
5701 gatttcgatt tcacatatct ggtgccacca acagtggaat ctaaaacaaa accattcacc
5761 ctcccaatcc tcacacttgg ggaactttcc aattctaggt tcccagtgtc catagaccag
5821 atgtacacca gccctaatga agttatatca gtgcagtgtc aaaatggtag gtgcacattg
5881 gacggggaac ttcaagggac aacacaactc caagtcagtg gcatttgtgc tttcaagggg
5941 gaagtgaccg cccatttgca tgacaatgat cacctataca atgtcaccat cacaaacttg
6001 aatgggtccc cttttgaccc ctccgaggac gttcctgccc ctctgggcgt gcctgatttc
6061 cagggaaggg tctttggtat tatctcccaa agagacaaac ataatagccc tgggcataat
6121 gaaccagcaa acaggggaca cgacgctgtg gtccctactt acacagcaca gtacactcca
6181 aaattgggtc agattcaaat tggcacatgg cagaccgatg atcttacagt caaccaacca
6241 gtcaaattca ccccagttgg actcaatgac actgaacatt ttaatcaatg ggtggtcccc
6301 agatacgctg gtgccctaaa cctcaacaca aaccttgccc cttctgttgc tccggtattt
6361 ccaggggagc gcctgctttt cttcagatca tacgttcccc tcaagggtgg ttatggaaat
6421 ccagccattg attgcctatt accacaagag tgggtgcaac acttctatca ggaagctgcc
6481 ccatcaatga gtgaggtggc ccttgtcaga tacatcaacc cggatactgg tcgggcactg
6541 tttgaggcca agctccacag agctggtttc atgacagtct cgagcaacac cagtgccccg
6601 gtggttgtgc ctgccaatgg gtacttcaga tttgactctt gggttaatca attctattct
6661 ctcgccccca tgggaactgg aaatgggcgt agaagggttc aataatggct ggagctttta
6721 tggctggtct tgcaggggac gtgctcagca atgggctcag ttcattaatt aatgcaggtg
6781 ctaatgcaat aaatcagagg gcagaatttg attttaatca gaaattacag caaaattctt
6841 tcaatcatga taaggagatg ttgcaggccc agattcaggc aactaagcag ctgcaggcag
6901 acatgatggc tataaaacag ggggtcctga ccgctggcgg cttttcccct gctgatgcag
6961 ccagaggtgc tgtgaatgcg cccatgacac aggcgctgga ttggaacggc acaaggtatt
7021 gggcaccagg ctctatgagg accacatctt attctggaaa attcacatca atcgccccag
7081 tgaggcaggc cgacttccag cacacccaaa gccggccttc gagtggctct tctgtgtcct
7141 cctttgccac tcagtcttca aggccaactc tgaccacaac cactgggtcc tcacatggca
7201 cagcctcatc aaattcaact cgcagcacag gcctctccca atcaacggtc tctagagcta
7261 catctaggac tagtgagtgg gttagagatc aaaatagaaa tttggaaccc tacatgcatg
7321 gtgccttaca gacggccttt gtcaccccac cttccagcag ggcgtctgac gggacagtct
7381 caaccgtccc aaaaggtgtt ttggactcct ggacacctgc gttcaacacc cgcaggcagc
7441 cgctctttgc acacctccgt aagagggggg agtcacatgc ctagtgaaaa ggtgaaaatt
7501 tgtttagaat aaattgattc tacctttt
//