Typing tool
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Typing tool
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Complete norovirus genomes
| LC228948 | GII.2 | |
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| GII.P16 |
ORF1: 1..5076
ORF2: 5057..6685
ORF3: 6685..7464
LOCUS LC228948 7500 bp RNA linear VRL 27-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2014/GII.P16_GII.2/Osaka246 POL, VP1, VP2 genes
for nonstructural protein, capsid protein VP1, capsid protein VP2,
partial and complete cds.
ACCESSION LC228948
VERSION LC228948.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2014/GII.P16_GII.2/Osaka246
ORGANISM Norovirus Hu/GII/JP/2014/GII.P16_GII.2/Osaka246
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Nagasawa,K., Matsushima,Y., Motoya,T., Mizukoshi,F., Ueki,Y.,
Sakon,N., Murakami,K., Shimizu,T., Okabe,N., Nagata,N., Shirabe,K.,
Shinomiya,H., Suzuki,W., Kurida,M., Ryo,A., Fujita,K., Oishi,K.,
Katayama,K. and Kimura,H.
TITLE Molecular evolution of the RNA-dependent RNA polymerase and capsid
genes in a newly emerged human norovirus GII.P16-GII.2 variant in
Japan during 2016-17 season
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7500)
AUTHORS Matsushima,Y., Mizukoshi,F., Shimizu,H. and Kimura,H.
TITLE Direct Submission
JOURNAL Submitted (30-MAR-2017) Contact:Yuki Matsushima Kawasaki City
Institute for Public Health, Division of Virology; 3-25-13
Tonomchi, Kawasaki-ku, Kawasaki, Kanagawa 210-0821, Japan
FEATURES Location/Qualifiers
source 1..7500
/organism="Norovirus
Hu/GII/JP/2014/GII.P16_GII.2/Osaka246"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2014/GII.P16_GII.2/Osaka246"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1973426"
/country="Japan: Osaka"
/collection_date="2014"
/note="genotype: GII.P16-GII.2"
gene <1..5076
/gene="POL"
CDS <1..5076
/gene="POL"
/codon_start=1
/product="nonstructural protein"
/protein_id="BBC20966.1"
/translation="DATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQSAPR
DNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRFEVKSGISGLPDLTTVPQPDATNTAF
SVPPLSLRENREAKEPLTGAIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKVEL
APLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSRRM
VQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPLNI
LNILATCDWTFAGIVESLILFAELFGVYWTPPDVSAMIAPLLGEYELQGPEDIAVELV
PVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEAN
ELAMVRAIEDAVLDLEAIENNHMTALLKDKDSLATYMKTLDLEEEKARKLSTKSASPD
IVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAKKVAS
TLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTLNC
DRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFP
GQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHE
RMDEFELQGPTITTFNFDRNRVTAFRQLAAENKYGLVDTMRIGNQLKGVKTMEELKQA
IKNVSIKRCQIIYHGSTFDLESDGKGKVTVEKVKNTTVQTNNELAGALHHLRSARIRY
YVKCVQEAIYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSEPEVKEETPKLEDDE
FIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITSTH
VIPPGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVLIK
RPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYIYK
RGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGEAPKLS
TKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPRPS
VLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPHHARKNEFWNGETFTGK
LADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMVRCAR
AFGGLMDEMKAHCISLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVL
AAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSISH
WLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKPTR
PDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHEDPNET
MIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
gene 5057..6685
/gene="VP1"
CDS 5057..6685
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBC20967.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSSFDPSEDIPAPLGIPDFQGRVFG
VISQRDKHNTPGHNEPANRAHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGTPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6685..7464
/gene="VP2"
CDS 6685..7464
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBC20968.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQKLQQN
SFNHDKEMLQAQVQATKQLQADMMAIKQGVLAAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTAYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTNLSQSTVSRATSRTVEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQV"
ORIGIN
1 gacgctaccg ttgccgttgc ttgcaacaac aacaacgaca aggaaaaatc ttcgggtgaa
61 ggcttattta caaatatgtc ttccacccta aagaaagccc tcggggctcg gcctaaacag
121 tcagccccga gggacaactc acaaaaaccc ccaagaccac caacgcccga gttggttaaa
181 aggatacccc ctcccccacc taatggcgaa gaagagccag tcattaggtt tgaggtcaag
241 agtggaattt ctggcctgcc cgatctcacg acagttcctc aaccagatgc gaccaatacg
301 gcattcagtg ttccaccgtt gagcttaaga gagaacaggg aggccaagga accgctaact
361 ggggcaataa tagagatgtg ggatggagag atataccact atggtttgta tgtggagaaa
421 ggcctagtct tgggtgtgca caaaccaccc gcagctataa gcatggcaaa agtggaatta
481 gcaccgctgt cgttatactg gcgtgtggtg tacactcccc aatacctcat ctcccctgac
541 actctcaaga ggctcaacgg agaggcattc ccctacaccg cctttgataa taactgttat
601 gccttttgct gctgggtgtt agaccttaat gactcatggc tcagcagaag aatggtgcag
661 aggacgacag gcttcttcag accctaccaa gagtggaaca gaaagcccct acccaccatg
721 gatgattcca aaattaagaa ggtggcaaac atattcctat gttcattatc tacactgttc
781 accaggccta taaaagacat catagggaaa atcaaaccac tgaatatctt aaacattctg
841 gcaacgtgtg attggacgtt cgccggaatc gtagagtctc taatattatt tgctgaactc
901 tttggagttt actggacacc cccagatgtg tctgctatga tcgctccctt acttggcgag
961 tacgagttgc agggaccaga agacatcgcc gttgagctcg tacctgtagt gatggggggg
1021 attggtttag tgctaggatt caccaaagag aaaattggca aaatgctgtc ctcagcagcg
1081 tcaacgctca gggcttgcaa agaccttggt gcctatggtt tagagatact caaattagtc
1141 atgaaatggt ttttcccaaa gaaagaagaa gccaatgaac tagccatggt gagagcaata
1201 gaggatgctg ttctggatct tgaggcgata gaaaacaatc acatgacagc cctgctgaaa
1261 gataaagaca gccttgcaac ctacatgaaa acactggacc tagaggagga gaaagccaga
1321 aaactgtcca cgaaatctgc atctcctgac atagttggga caatcaacgc cctgctggct
1381 cgaatagcgg cggctagatc actagtccac agggccaagg aggagctatc tagcagaatc
1441 agaccagttg tcgttatgat atctggcaag ccagggatag gcaagaccca cttggccagg
1501 gaggtggcga aaaaagtggc gtccactctc acaggagatc aaagagttgg actcataccg
1561 agaaacggtg tggaccattg ggatgcatac aaaggtgaaa gggtcgtgtt gtgggatgac
1621 tatggcatga gtaaccctat tcatgatgca ctgcgcatac aggaattggc cgacacatgc
1681 cccctcacct tgaattgtga cagaattgaa aacaagggaa aagtttttga tagtgatgtt
1741 ataataatta caacaaacct tgccaaccca gctcctcttg attatgtcaa ctttgaggcc
1801 tgttccagga gaattgactt cctggtgtac gccgaagcgc cagaagtgga aaaggcaaaa
1861 cgggatttcc ctggtcaacc agatatgtgg aaggacgcct tcaaagcgga cttctcgcac
1921 atcaagttgc aacttgcgcc ccagggcggc tttgacaaga atggcaacac cccacatggg
1981 aaaggagtga tgaagaccct taccaccggt tctctgatcg cccgtgcgtc aggcttgctg
2041 catgagagga tggatgagtt tgaacttcag ggccccacaa tcaccacttt caactttgac
2101 cggaacagag tcaccgcttt cagacaactg gctgctgaga acaaatatgg actggtggat
2161 accatgagga ttggcaatca attgaaaggg gtgaaaacca tggaagaact caagcaagct
2221 atcaagaatg tgtccatcaa gaggtgccag attatctatc atggatccac gtttgacctt
2281 gagtctgatg gcaagggtaa agttacagtg gaaaaggtca aaaacaccac tgttcagacc
2341 aacaacgaat tggccggagc cctgcaccac ctcagaagtg ctcgaatcag gtattatgtc
2401 aaatgtgtgc aagaggcaat ctattctatc ctacaaattg ccggcgccgc gttcgtcacc
2461 acacgcattg cacgccgcat gaatatacaa gagctttggt caaagccacc actagaccaa
2521 agcgagccag aggtcaagga ggagaccccc aagttagagg atgatgaatt catcatctcc
2581 tccaaggaca ttaaggagga agggaagaag ggcaaaaaca aaactggccg tggcaagaaa
2641 cacactgcat tctctagcaa gggcttgagc gatgaggagt atgacgagta caagaggata
2701 agagaagaga gaaatgggaa gtattctata gaggagtatc ttcaagacag ggacaggtac
2761 tatgaagaac tcgccatcgc caaggccacg gaagaagact tttgtgagga ggaagagata
2821 aaaatccgcc agcgaatctt tcgtcccact agaaaacaaa ggaaggaaga aagggccacg
2881 ttagggctag tgactggttc ggaaatcaga aaaagaaacc ctgatgactt caaacctaaa
2941 gggaaattgt gggccgacga caacagaagt gttgactaca atgaaaaact ggactttgag
3001 gcccccccaa gcatatggtc taggatcgta agctttggtt caggttgggg cttctgggtg
3061 tcaccaagcc tgtttataac atcaactcat gtgatccctc cgggtataac agaggcattt
3121 ggagtcccta tcaaacagat tcaagtccac aaatcgggcg aattttgtcg gttcagattc
3181 ccaaaaccaa ttagaccaga tgtaacagga atgatcctgg aagaaggtgc gccagagggc
3241 accgtagcaa ccgtgctcat caagcgcccc actggagaac tcatgcccct cgcagctaga
3301 atgggaacac acgcaaccat gaaaattcag ggccgcatgg ttggtgggca gatgggcatg
3361 ttgctcactg gttcaaatgc taagggtatg gatctgggga caactcccgg tgactgtggc
3421 tgcccgtata tttacaaaag gggcaatgac tacatagtca ttggagtgca cacagcagca
3481 gcccgaggtg gtaatactgt catctgtgcc acacagggaa gtgagggtga agcgaccctc
3541 gagggtggag acgacaaagg aacatactgt ggggcaccca tcctgggccc tggagaggcg
3601 ccaaagttaa gcacaaaaac caaattttgg aggtcatcaa acacgcccct cccaccaggg
3661 acatatgagc ctgcctacct tggcggtcgt gatccgcgtg taaagggtgg gccttcccta
3721 caacaagtca tgagagatca gttaaagccc ttcaccgagc ccaggggtaa acccccgaga
3781 cctagtgtgc tggaggcagc caaacagacc atcatcaacg ttctcgagca aactttggat
3841 cccccacaaa aatggacgta cgcacaagcg tgcgcttcac ttgataaaac cacctctagt
3901 ggacaccccc atcacgctcg aaagaatgaa ttctggaacg gtgagacctt taccggtaag
3961 ttggcagacc aagcatcaaa agcaaactta atgtttgagg aagggaaaca tatgacacca
4021 gtgtacacag cagcccttaa ggatgagttg gttaaaaccg acaaaatcta tgggaagatc
4081 aagaaacgcc tgctttgggg ctctgattta tccaccatgg tccgatgtgc tagggccttt
4141 ggtggactca tggacgagat gaaggcgcac tgcatatcgc tcccaatccg agttggcatg
4201 aatatgaatg aggatggccc aataatattt gagaagcact ccagatataa atatcactat
4261 gatgcagact actctcgctg ggactcaaca caacagaggg ctgttctagc agcggccttg
4321 gaaataatgg tcagattctc tgcagaaccg caactggccc aaacagttgc tgaggatctg
4381 ctggccccca gtgtagtaga tgtcggagac ttcaaaattt caataaatga gggactccct
4441 tctggtgtac catgcacttc ccagtggaat tccatctcac actggttgct aactctctgt
4501 gctttgtctg aagtcaccaa cctgtctcct gacatcgtgc aggcaaattc tatgttctca
4561 ttttacggtg atgacgagat cgtcagcacc gatataaaat tggaccctga aaagttaacc
4621 accaaattga gggagtatgg tctaaaacca actcgcccag acaaaaccga ggggcccttg
4681 atcatcagtg aggatttgga cggtctcacc ttcctccgga ggacggtttc tcgtgaccca
4741 gctggttggt ttggaaagtt agatcaaagc tcaatactaa ggcagatgta ttggaccaga
4801 ggaccaaacc atgaagaccc caatgagaca atgatacccc actctcaaag acccatacag
4861 ctcatggcac tgcttggtga ggcctccctt cacggaccct ctttctacag caagattagt
4921 aaattggtca taactgaact caaagaaggt gggatggact tttacgtgcc aagacaggaa
4981 cccatgttca gatggatgag gttttctgat ttgagcacgt gggagggcga tcgcaatctg
5041 gctcccagtt ttgtgaatga agatggcgtc gaatgacgcc gctccatcta ctgatggtgc
5101 agccggcctc gtgccagaaa gtaataatga ggtcatggct cttgaacccg tggctggtgc
5161 cgccttggca gccccagtca ccggtcaaac aaatataata gacccttgga ttagagcaaa
5221 ttttgtccag gcccccaatg gtgaatttac agtctctccc cgtaactccc ctggtgaagt
5281 gctattgaat ctagagttgg gtccagaatt aaatccttat ctggcacatt tagcaagaat
5341 gtataacggg tatgccggtg ggatggaggt gcaggtcatg ttggctggga atgcgttcac
5401 agccggcaag ttagtcttcg ccgctgtgcc accccacttc ccggtcgaaa accttagccc
5461 acagcaaatt accatgttcc ctcatgtgat tatagatgtc aggactttgg aacctgtttt
5521 attaccactc cctgatgtta ggaataactt cttccattac aatcagaaag atgaccccaa
5581 gatgagaatt gtggctatgc tttacacccc cctcaggtct aatggttcag gcgatgatgt
5641 gtttacagtt tcctgcaggg tgttgactag accctcccct gattttgatt tcacatatct
5701 ggtgccacca acagtggaat ctaaaacaaa accattcact ctcccaatcc tcacgcttgg
5761 ggaactttct aattctagat tcccagtgtc catagaccag atgtacacca gccccaatga
5821 agtcatatca gtgcagtgcc aaaatggcag gtgcacactg gatggggaac tccaaggaac
5881 aacacaactc caagtcagtg gcatttgtgc tttcaaggga gaagtgactg cccacttgca
5941 tgacaatgat cacctgtata atgtcaccat cacaaacttg aatgggtcct cttttgaccc
6001 ctctgaggac atccccgccc ctctgggcat acctgacttt caggggaggg tctttggtgt
6061 catctcccaa agagacaaac acaacacccc tggacacaat gaaccagcaa acagggcaca
6121 cgatgccgtg gtccctactt atacagcaca gtatacccca aaattgggtc agattcaaat
6181 tggcacatgg cagactgacg atctcacagt caaccaacca gtcaaattca ccccagttgg
6241 acttaatgat actgaccatt ttaaccaatg ggtggtcccc aggtatgctg gtgccctaaa
6301 cctaaacaca aaccttgccc cttctgttgc tccagtattt ccaggggagc gtctgctctt
6361 tttcagatca tacattcccc tcaagggcgg ttatggaact ccagccatcg attgcctact
6421 accacaagag tgggtgcaac atttctatca ggaagcagcc ccttcgatga gtgaggtggc
6481 ccttgtcaga tacatcaacc cggatactgg tcgggcactg ttcgaggcca aactccacag
6541 agctggtttc atgacagtct caagcaacac cagtgccccg gtggttgtgc ctgccaacgg
6601 atacttcagg tttgattctt gggtgaacca attctattct ctcgccccca tgggaactgg
6661 aaatgggcgt agaaggatcc aataatggct ggagcttttg tagctggtct tgcaggggac
6721 gtgctcagca atgggctcag ttcattaatt aatgcaggtg ctaatgcaat aaatcagagg
6781 gcagaatttg attttaatca gaaattacag caaaattctt tcaatcatga taaggagatg
6841 ttgcaggccc aggtccaggc aactaagcag ctgcaggcag atatgatggc tataaaacag
6901 ggggtcctgg ccgctggcgg cttttcccct gctgatgcag ccagaggtgc tgtgaacgcg
6961 cccatgacac aggcgctgga ttggaacggc acaaggtatt gggcaccagg ctccatgagg
7021 actacagcct actctgggag attcacatca accgccccag tgaggcaggc tgatttccag
7081 cacacccaaa gccggccctc gagtggttct tctgtgtcct cctttgctac tcagtcttca
7141 aggccgaccc tgaccacaac cactgggtcc tcacatggca cagcctcatc aaattcgact
7201 cgcagcacaa acctctccca atcaacggtc tccagggcta catctaggac tgttgaatgg
7261 gtcagagacc aaaacagaaa tttggaacct tatatgcatg gtgccttaca gacggccttt
7321 gtcaccccac cttccagcag ggcgtctgat gggacggtct caaccgttcc aaaaggtgtt
7381 ttggactcct ggacacctgc gtttaacacc cgcaggcagc cgcttttcgc acacctccgt
7441 aagagggggg agtcacaggt ttagtgaaaa ggtgaaaatt tatttaaaat gaattgattt
//