Typing tool
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Typing tool
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Complete norovirus genomes
| LC043168 | GII.17 | |
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| GII.P17 |
ORF1: 1..5092
ORF2: 5073..6689
ORF3: 6689..7468
LOCUS LC043168 7535 bp RNA linear VRL 31-OCT-2015
DEFINITION Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5309 genomic RNA,
nearly complete genome.
ACCESSION LC043168
VERSION LC043168.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5309
ORGANISM Norovirus Hu/GII/JP/2013/GII.P17_GII.17/Saitama5309
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1
AUTHORS Matsushima,Y., Ishikawa,M., Shimizu,T., Komane,A., Kasuo,S.,
Shinohara,M., Nagasawa,K., Kimura,H., Ryo,A., Okabe,N., Haga,K.,
Doan,Y.H., Katayama,K. and Shimizu,H.
TITLE Genetic analyses of GII.17 norovirus strains in diarrheal disease
outbreaks from December 2014 to March 2015 in Japan reveal a novel
polymerase sequence and amino acid substitutions in the capsid
region
JOURNAL Euro Surveill. 20 (26), 21173 (2015)
PUBMED 26159307
REFERENCE 2 (bases 1 to 7535)
AUTHORS Shimizu,H., Shinohara,M., Matsushima,Y., Ishikawa,M. and Shimizu,T.
TITLE Direct Submission
JOURNAL Submitted (07-APR-2015) Contact:Hideaki Shimizu 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..7535
/organism="Norovirus
Hu/GII/JP/2013/GII.P17_GII.17/Saitama5309"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2013/GII.P17_GII.17/Saitama5309"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1640679"
/geo_loc_name="Japan: Saitama"
/collection_date="2013"
/note="genotype GII.P17_GII.17"
gene <1..5092
/gene="POL"
CDS <1..5092
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BAR63717.1"
/translation="DASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGARPKQPPP
GETKQIQKPPRPPTPELVKRIPPPPPNGEDEPKIVYKVGEGVSGLPNLTTVAQPDAQN
TAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAAISLAK
IELTPLSLYWRVVYTPQYLIAPETLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDEPKVKKAANAVLCALSSLFTRPIKDIIGKLRP
LNILNVLATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKE
EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA
SPDIVGTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKK
VASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKR
DFPGQPDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGL
LHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVKTLDEL
KQAIKNISIKKCQIVYNGCTYTMESDGRSKVVVEKVQNATVQTNNELVGALHHLRSAR
IRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDKGGCPKP
RDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGS
EIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLF
ITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVV
SILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDFVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGN
APKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKNDYWSGE
SFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTM
IRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYG
LKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHE
DPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5073..6689
/gene="VP1"
CDS 5073..6689
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BAR63718.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDHRDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGV
ASQRNVGNDAPGSTRAHEAVISTYSPQFVPKLGSVNFRSNDNDFQLQPTKFTPVGIND
DGDHPFRQWELPDYSGLLTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIVDCL
IPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6689..7468
/gene="VP2"
CDS 6689..7468
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BAR63719.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVKATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPNAPQSKPAKPRSLAPSSSSSSVYSMSTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 cgacgcttcc gctgccgttg ctggcaaaaa caacaacaac gacaaggaga aatcttcaag
61 tgacagcttg ttttctaaca tgactgttac ttttaagaaa gccctcgggg cgcggcctaa
121 acaaccgccc ccgggagaaa caaaacaaat acaaaaacca ccaaggccac cgacaccgga
181 attggtgaag agaatacccc cacccccacc caatggcgag gatgaaccaa agatagtgta
241 taaggtggga gagggtgtgt ctgggctgcc caacctaaca actgtggcac agcctgacgc
301 acaaaacaca gcttatagtg ttcccccact tagccagaga gaagtcggcg aagctaaaga
361 accgctgcct ggctccattc tggaaatgtg ggatggtgag atctaccact atgggctgta
421 tgttgagcgg gggcatgtac tcggagtaca caaaccacct gctgcaataa gccttgccaa
481 aattgaatta acaccgctgt ctctctactg gagagtggtc tacactcccc agtatttgat
541 agctccagaa actcttaaga acttgagtgg agagactttc ccatacacgg cctttgacaa
601 caactgttat gccttctgtt gttgggtcct agacctcaac gactcctggc ttagcaggag
661 aatgatccaa agaacaactg gattcttcag accgtatcag gattggaaca gaaaaccctt
721 accaaccatg gatgaaccga aagtcaagaa ggccgcgaat gctgttctgt gcgctctctc
781 ctcactcttc actagaccca ttaaggacat cattggaaag cttagaccac tgaacattct
841 taatgtactg gcaacttgtg actggacttt tgcaggcata gtggaatcca tgatccttct
901 tgctgaactc tttggggtgt tctggacccc cccagatgtg tctgcgatga ttgctccctt
961 actcggtgac tacgagatgc aaggccccga agacctggcc gtggaacttg tgcccgtggt
1021 aatgggagga ataggtttgg tgttaggatt caccaaggaa aagatcggca agatgctttc
1081 atcagctgcg accacactta gggcctgcaa ggatctagga tcttatggat tggagatact
1141 caaattggtc atgaagtggt tcttccccaa gaaggaggag gctaacgaac tagccatggt
1201 gagggccatt gaggatgcag tcctggattt ggaggcaata gaaaacaacc acatgaccac
1261 ccttctcaag gataaagaca gcctggccac atacatgagg actcttgact tggaagaaga
1321 gaaagcaagg aaactgtcaa ccaaatcggc gtcacctgac atcgtgggta caataaactc
1381 attattggca aggatagcag ccgccaggtc actggtccac aaggctaagg aggagctctc
1441 gagcagacag agacctgttg ttgtaatgat atcaggtaga ccaggtatag gaaagaccca
1501 tctagccaga gagctagcca agaaagttgc gtcaacactg tcaggcgacc aaaggattgg
1561 actgatacct agaaatggcg tcgaccattg ggacgcctac aagggagaaa gggtggttct
1621 gtgggatgat tatggtatga gcaaccctat acaggacgca ctgaggctcc aagaattggc
1681 tgacacctgt cctctgaccc tgaattgtga caggattgaa aacaaaggaa aagtgttcga
1741 cagtgatgcc ataattataa caaccaacct tgcaaaccca gcaccactag actatgtcaa
1801 ctttgaggcc tgctctagac gcatagactt cttggtgtat gcagacgcac ctgacatcga
1861 gaaggctaag cgtgatttcc ctggccaacc agatatgtgg aaagaccatt acagaccaga
1921 cttcacacac attaaacttc agctggcacc acagggaggt tttgacaaaa atggcaacac
1981 cccacatggc aaaggtgtgg tgaagtctct gacgattggt tctctgatcg ccagggcttc
2041 tggcttgctc cacgagagaa tggatgaatt cgagctccag ggctctgacc tgccaacctt
2101 caattttgac cgcaacaaag tcgccgcctt cagacaatta gcagctgaaa acaaatatgg
2161 tcttatggac acactgaggg tcggcaacca actgaaaagt gtcaagaccc tggatgagct
2221 gaaacaggcc ataaagaaca tcagtatcaa gaagtgccag atagtgtata atggatgcac
2281 ctataccatg gaatctgatg ggaggagcaa ggttgtggtt gaaaaggtac aaaacgcaac
2341 agttcaaacc aacaatgaac ttgtaggggc actccaccac ctgagatctg caaggataag
2401 atactatgtt aaatgtttcc aagaagccat ttactctcta cttcaaattg ctggtgcagc
2461 cttcgtcacc tcacgcatcg tgaggcgcat gaacatctca aacctctggt cgaagccacc
2521 catcgaggag ggtgatgagc ctgaagacaa aggaggatgc cccaagccca gggatgaaga
2581 tgacctcact attgactcta gagacattaa agtggaaggg aagaagggca agaacaagtc
2641 tggtcggggc aagaaacaca cagccttctc atccaagggc ctcagtgatg aagagtacga
2701 tgagtacaag agaatcagag aggagaggaa tggcaaatac tcaatagagg aatacctcca
2761 agatagggac agatactatg aagagcttgc cattgctaag gccactgagg aggacttctg
2821 tgaagaggag gagatcaaaa tccgccagag aatcttccga cccaccagga agcagcggaa
2881 agaggaaagg gccacgcttg ggcttgtcac aggatcggaa atcagaaaga ggaatccaga
2941 tgactttaaa ccaaaaggaa aattgtgggc tgatgacaac aggagcgtgg attacaatga
3001 gaggatagat tttgaggctc ccccgagtgt ttggtctagg atagtcaact ttggcacagg
3061 ctggggattc tgggtttctc caagtctctt tataacttca acacacgtca taccaaaagg
3121 aatcactgag gcctttggag tgcccataaa ccaaatccaa attcacaaat ctggagaatt
3181 ttgccgcttg cggtttccaa agccaatcag accagacgtg agtgggatga tcttggaaga
3241 gggtgcccct gaaggcactg ttgtgtctat tctcatcaaa aggacaacag gggagctgat
3301 gcctcttgca gtcagaatgg ggactcatgc cacaatgaaa atccaaggta gaacggtggg
3361 tggtcagatg ggtatgcttc tcactggctc aaatgctaaa agcatggatc taggcacaac
3421 gccaggtgac tgcgggtgtc catacatata caaaaggggc aatgacttcg tggccattgg
3481 ggtgcacact gcagcagcac gtggaggcaa cacggtcata tgtgccacac agggaagtga
3541 aggtgaagcc actcttgaag gaggtgacaa caagggtacc tattgtggag cccccatttt
3601 gggacctggc aatgcaccaa aattgagcac aaaaacaaaa ttctggagat cctctaacgc
3661 accgcttccc ccaggtactt atgaaccagc ataccttggt gggagagacc cgcgcgtgaa
3721 gggaggccca tctctgcaac aagttatgag agaccaactt aaacctttca cagagcccag
3781 agggaagcca ccaaacccaa atgtcctaga gtcagcaaag aagactatca tcaatgttct
3841 ggaacaaacc attgaccccc ctcaaaagtg gtcatatgcc caagcttgtg catccctcga
3901 caagacaacc tccagtggat acccgcacca cgtccggaag aatgactatt ggagtggtga
3961 atccttcaca gggaaacttg cagaccaggc ttcaaaagca aatctcatgt atgaggaagg
4021 caagcacatg caaccagttt acaccgcagc actcaaagac gagctcgtga aaactgacaa
4081 aatttatggc aagatcaaga aaagactcct gtggggttct gacctctcca ccatgattcg
4141 atgcgccaga gcatttggtg gtctcatgga tgagctcaaa gcaaattgta ttacactccc
4201 tatcagagtt ggtatgaata tgaatgaaga cggtcccata atatttgaga aacactccag
4261 gtacaggtac cactatgatg ctgattactc ccgctgggac tccacacaac agcgggcagt
4321 gctggaagcg gcacttgaaa tcatggtgag attttctgct gagccacagc tggcacaaat
4381 agtggcagag gacctgctgt caccaagtgt ggttgatgtg ggcgatttca aaatcgctat
4441 caatgaaggc ctaccatctg gcgtgccttg cacctcacaa tggaattcta ttgcccactg
4501 gttactcacc ctgtgtgccc tttctgaagt gacaggacta ggtcctgaca tcatacaagc
4561 caactccatg tactctttct atggtgatga tgagattgtg agcacagaca taaaattgga
4621 cccagagaaa ttgaccgcaa aactcaaaga atatggcctt aaacccactc ggcccgacaa
4681 aactgagggg ccgctggtga ttagtgaaga cctgaatggg ttgactttcc tccgccgaac
4741 agtcacccgt gatccagcag gttggtttgg aaagttggac caaaactcca tcctcaggca
4801 gttgtactgg acaagaggac ccaaccatga agaccccagt gagaccatga taccacacgc
4861 acagagacct gtgcagctca tggcactact aggagaatcc tccctacatg gaccctcatt
4921 ttacagcaag gttagcaaac tggtcatatc tgaacttaaa gagggaggaa tggattttta
4981 tgtgcccaga caagagtcaa tgttcagatg gatgaggttc tcagatctaa gcacatggga
5041 gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat gacgccgctc
5101 catctaatga tggtgctgct ggtctcgtac cagagggcaa caacgagacc cttcccctag
5161 aaccagttgc gggcgcagct atagccgcac ccgtcactgg ccaaaacaac ataattgacc
5221 cctggattag aacaaatttt gtgcaagcac caaatggaga gttcacagtg tcacccagaa
5281 actcccctgg agaaatttta ctaaacctag agttgggccc tgatttgaac ccttatttgg
5341 ctcatttgtc aaggatgtac aatgggtatg ctggtggagt ggaagttcag gttctcctgg
5401 cagggaacgc gttcactgcc ggaaagatcc tcttcgccgc cgtcccgcca aatttcccag
5461 tggaattctt aagcccagcc cagattacaa tgctcccaca tttaatagta gatgtcagga
5521 ctcttgaacc aattatgatc ccactccctg atgttaggaa tacattcttc cattataaca
5581 accagcctaa cagccgcatg agattagtgg ctatgctcta cacccccctt agatctaatg
5641 gctcaggtga tgatgtcttt actgtctctt gcagggtttt gactaggcct actcctgatt
5701 ttgagttcac ttatttagtg ccaccttctg ttgaatctaa gactaagcct ttttccttac
5761 ctattttaac cctttctgag ctcacaaatt cgaggttccc agtccccatc gattcgcttt
5821 tcaccgccca gaataatgtg ttgcaggtgc agtgtcaaaa tggcaggtgc acacttgatg
5881 gtgagttaca aggcacaacc cagttgctcc catctggcat ctgtgcattc agaggacggg
5941 tgacagcaga aactgaccat cgtgacaagt ggcacatgca actgcaaaac ctcaacggca
6001 caacatatga cccaactgat gatgtgccag ccccgctggg tacacctgac ttcaagggcg
6061 tcgtgtttgg ggtagcaagc caaagaaatg tgggtaatga tgcgcctggc tcaaccaggg
6121 cccatgaggc ggtgatttca acctatagcc cccaatttgt ccccaaatta ggttctgtca
6181 attttagaag taatgataat gatttccaat tgcagccgac aaaattcaca ccagtgggca
6241 tcaatgacga tggtgaccac ccgttcagac agtgggaact accagactat tcagggctgc
6301 ttaccttgaa tatgaacctt gcccccccgg ttgctccaaa tttccctggt gaacaattat
6361 tattcttcag atcttttgtg ccatgctcag gaggttataa ccaaggcatt gtagattgtc
6421 ttattcccca agaatggatc caacacttct atcaggaatc agcgccctcc cagtcagacg
6481 tggccctaat caggtatgtt aaccccgata cgggacgtac actgtttgaa gcaaaattgc
6541 acagatctgg ttacattact gtggctcact ctggagacta tcctcttgtt gttccggcta
6601 atggatactt tagatttgat tcttgggtaa atcagtttta ctcactcgcc ccaatgggaa
6661 ctgggaatgg gcgaaggagg gctcagtaat ggctggagct ttcattgcag gattggcagg
6721 cgacatgctc acgtcatctg tgggctccct ggtgaacgca ggggcaaacg ccatcaacca
6781 aaagatagac tttgaaaaca acaaacaact ccagtctgct tcctttcagc atgataaaga
6841 gatgctccaa gcgcaggtga aggcaaccaa gcagctgcaa tctgaaatga tagccctaaa
6901 acagggggtt ttggccgcag gcggcttttc ccccactgat gcagcaaggg gagccattgg
6961 tgcacccatg acaaaggtgc ttgactggtc tggcactcga tactgggcac ccaattccac
7021 aaagacaact ggttattcgg gacaattcac ctcttcacct gtgcacatgc ctagcccaaa
7081 tgctccacaa tcaaaacctg caaagcctag gtctctagct ccttcttctt cttctagtag
7141 tgtctatagt atgtctactc aatcaactca tttaacatct ggctcttcta gtaatgcttc
7201 ttctgcctct acaaaattga caaacttaag ctctggctcc tctcaaaaca gaacagcaga
7261 gtgggtgaac caacagagaa gtcttagccc tttcatgagt ggcgcactca atatctcaca
7321 tgtcacgcca ccctcaagta gggcttccag ttctgggacg gtctcgaccg tgcccaagga
7381 agttttggac tcctggacgt ctgcgtttaa cacacacaga cagccgctct tcgcacacct
7441 cagagtgagg ggggagtcac gtgtttagtg aaaagaaata attggctata atgtgatttc
7501 tttttaaaat ttggctaatt tgtatctttt aaaaa
//