Typing tool
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Typing tool
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Complete norovirus genomes
| LC209456 | GII.2 | |
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| GII.P16 |
ORF1: 1..5083
ORF2: 5064..6692
ORF3: 6692..7471
LOCUS LC209456 7531 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-7 RNA, nearly
complete genome.
ACCESSION LC209456
VERSION LC209456.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-7
ORGANISM Norovirus Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-7
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 7531)
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..7531
/organism="Norovirus
Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-7"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2013/GII.P16_GII.2/Miyagi-7"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934282"
/country="Japan: Miyagi"
/collection_date="2013"
/note="genotype: GII.P16_GII.2"
gene <1..5083
/gene="POL"
CDS <1..5083
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBB86986.1"
/translation="STDATVAVACNNNNDKEKSSGEGLFTNMSSTLKKALGARPKQPA
PRDNSQKPPRPPTPELVKRIPPPPPNGEEEPVIRFEVKSGISGLPDLTTVPQPDATNT
AFSVPPLSLRENREAKEPLTGAIIEMWDGEIYHYGLYVEKGLVLGVHKPPAAISMAKV
ELAPLSLYWRVVYTPQYLISPDTLKRLNGEAFPYTAFDNNCYAFCCWVLDLNDSWLSR
RMVQRTTGFFRPYQEWNRKPLPTMDDSKIKKVANIFLCSLSTLFTRPIKDIIGKIKPL
NILNILATCDWTFAGIVESLILFAELFGVYWTPPDVSAMIAPLLGEYELQGPEDIAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMKTLDLEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRIRPVVVMISGKPGIGKTHLAREVAKKV
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRIQELADTCPLTL
NCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRD
FPGQPDMWKDAFKADFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLL
HERMDEFELQGPTITTFNFDRNRVTAFRQLAAENKYGLVDTMRIGNQLKGVKTMEELK
QAIKNVSIKRCQIIYHGSTFDLESDGKGKVTVEKVKNTTVQTNNELAGALHHLRSARI
RYYVKCVQEAIYSILQIAGAAFVTTRIARRMNIQELWSKPPLDQSESEVKEETPKLED
DEFIISSKDIKEEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEE
YLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIR
KRNPDDFKPKGKLWADDNRSVDYNEKLDFEAPPSIWSRIVSFGSGWGFWVSPSLFITS
THVIPTGITEAFGVPIKQIQVHKSGEFCRFRFPKPIRPDVTGMILEEGAPEGTVATVL
IKRPTGELMPLAARMGTHATMKIQGRMVGGQMGMLLTGSNAKGMDLGTTPGDCGCPYI
YKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDDKGTYCGAPILGPGGAPK
LSTKTKFWRSSNTPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPR
PSVLEAAKQTIINVLEQTLDPPQKWTYAQACASLDKTTSSGHPYHARKNEFWNGETFT
GKLADQASKANLMFEEGKHMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLSTMVRC
ARAFGGLMDEMKAHCISLPIRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRA
VLAAALEIMVRFSAEPQLAQTVAEDLLAPSVVDVGDFKISINEGLPSGVPCTSQWNSI
SHWLLTLCALSEVTNLSPDIVQANSMFSFYGDDEIVSTDIKLDPEKLTTKLREYGLKP
TRPDKTEGPLIISEDLDGLTFLRRTVSRDPAGWFGKLDQSSILRQMYWTRGPNHEDPN
ETMIPHSQRPIQLMALLGEASLHGPSFYSKISKLVITELKEGGMDFYVPRQEPMFRWM
RFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5064..6692
/gene="VP1"
CDS 5064..6692
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB86987.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNSPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNTPGHNEPANRAHDAVVPTYTAQYTPKLGQIQIGTWQTDDLAVNQPVKFT
PVGLNDTDHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGTPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRIQ"
gene 6692..7471
/gene="VP2"
CDS 6692..7471
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB86988.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQVQATKQLQADMMAIKQGVLAAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTAYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSYGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtctaccgac gctaccgttg ccgttgcttg caacaacaac aacgacaagg aaaaatcttc
61 gggtgaaggc ttatttacaa atatgtcttc caccctaaag aaagccctcg gggctcggcc
121 taaacagcct gccccgaggg acaactcaca aaaacccccg agaccaccaa cgcccgagtt
181 ggttaaaagg ataccccctc ccccacctaa tggcgaagaa gagccagtca ttaggtttga
241 ggtcaagagt ggaatttctg gcctgcccga tctcacgaca gttccccaac cagatgcgac
301 caatacggca ttcagtgttc caccgttgag cttaagagaa aacagggagg ctaaggaacc
361 gctaactggg gcaataatag agatgtggga tggagagata taccactatg gtttgtatgt
421 ggagaaaggc ctagtcttgg gtgtgcacaa accacccgca gctataagca tggcaaaggt
481 ggaattagca ccgctgtcgt tatactggcg tgtggtgtac actccccaat acctcatctc
541 ccctgacact ctcaagaggc tcaacggaga ggcattccct tacaccgcct ttgataataa
601 ctgttatgcc ttttgctgct gggtgttaga ccttaatgac tcatggctca gcagaagaat
661 ggtgcagagg acgacaggct tcttcagacc ctaccaagag tggaacagaa agcccctacc
721 caccatggat gattccaaaa ttaagaaggt ggcaaacata ttcctatgtt cattatctac
781 actgttcact aggcctataa aagacatcat agggaaaatc aaaccactga atattttaaa
841 cattctggca acgtgtgatt ggacgttcgc cggaatcgta gagtccctaa tattatttgc
901 tgaactcttt ggagtttact ggacaccccc agatgtgtct gctatgatcg ctcccttact
961 tggcgaatac gagttgcagg gaccagaaga catcgccgtt gagctcgtac ctgtagtgat
1021 gggggggatt ggtttggtgc taggattcac caaagagaaa attggcaaaa tgctgtcctc
1081 agcagcgtcg acgctcaggg cttgcaaaga ccttggtgcc tatggtttag agatactcaa
1141 attagtcatg aaatggtttt tcccaaagaa agaagaagcc aatgaactag ccatggtgag
1201 agcaatagag gatgctgttc tggatcttga ggcgatagaa aacaatcaca tgacaactct
1261 gctgaaagat aaagacagcc ttgcaaccta catgaaaaca ctggacctag aggaggagaa
1321 agccagaaaa ctgtccacga aatctgcatc tcctgacata gttgggacaa tcaacgccct
1381 gctggctcga atagcggcgg ctaggtcact agtccacagg gccaaggagg agctatctag
1441 cagaatcaga ccagttgtcg ttatgatatc tggtaagcca gggataggca agacccactt
1501 ggccagggag gtggcgaaaa aggtggcgtc cactctcaca ggagatcaaa gagttggact
1561 cataccgaga aacggtgtgg accattggga tgcatacaaa ggtgaaaggg tcgtgttgtg
1621 ggatgactat ggcatgagta accctattca tgatgcactg cgcatacagg aattggccga
1681 cacatgcccc ctcaccttga attgtgacag aattgaaaat aagggaaaag tttttgatag
1741 tgatgttata ataattacaa caaaccttgc caacccagct cctcttgatt atgtcaactt
1801 tgaggcctgt tccaggagaa ttgacttcct ggtgtatgcc gatgcgccag aagtggaaaa
1861 ggcaaaacgg gatttccctg gtcaaccaga tatgtggaag gacgccttca aagcggactt
1921 ctcgcacatc aagttgcaac ttgcgcctca gggcggcttt gacaagaatg gcaacacccc
1981 acatgggaaa ggagtgatga agacccttac caccggttct ctaatcgccc gtgcgtcagg
2041 tttgctacat gagaggatgg atgaatttga acttcagggc cccacaatca ccactttcaa
2101 ctttgaccgg aacagagtca ccgctttcag acaactggct gctgagaaca aatatgggct
2161 ggtggacacc atgaggattg gcaatcaatt gaaaggggtg aaaaccatgg aagagctcaa
2221 gcaagctatc aagaatgtgt ccatcaagag gtgccagatt atctaccatg gatccacgtt
2281 tgaccttgag tctgatggca agggtaaagt tacagtggaa aaggtcaaaa acaccactgt
2341 tcagaccaac aacgaattgg ccggagccct gcaccacctc agaagtgctc gaatcaggta
2401 ttatgtcaaa tgtgtgcaag aggcaatcta ttccatccta caaattgccg gcgccgcgtt
2461 cgtcaccaca cgcattgcac gccgcatgaa tatacaagag ctttggtcaa agccaccatt
2521 agaccaaagc gagtcagagg ttaaggagga gacccccaag ttagaggatg atgaattcat
2581 catctcctcc aaggacatta aggaggaagg gaagaagggc aaaaacaaaa ctggccgtgg
2641 caagaaacac actgcattct ctagcaaggg cctgagcgat gaggagtatg acgagtacaa
2701 gaggataaga gaagagagaa atgggaagta ctctatagag gagtatcttc aagacaggga
2761 caggtactat gaagaactcg ccatcgccaa ggccacggaa gaagactttt gtgaggagga
2821 agaaataaaa atccgccagc ggatctttcg tcccactaga aaacaaagga aggaggaaag
2881 ggccacgtta gggctagtga ctggttcgga aatcagaaaa agaaaccctg atgacttcaa
2941 acctaaaggg aaattgtggg ccgacgacaa cagaagtgtt gactacaatg aaaaactgga
3001 ctttgaggcc cccccaagca tatggtctag gatcgtaagc tttggttcag gttggggctt
3061 ctgggtgtca ccaagcctgt ttataacatc aactcatgtg atccctacgg gtataacaga
3121 ggcatttgga gtccctatca aacagattca agtccacaaa tcgggcgagt tttgtcggtt
3181 cagattccca aaaccaatta gaccagatgt aacaggaatg atcctggaag aaggtgcgcc
3241 agagggcacc gtagcaaccg tgctcatcaa gcgccccact ggagaactca tgcccctcgc
3301 agctagaatg ggaacacacg caaccatgaa aattcagggc cgcatggttg gtgggcagat
3361 gggcatgttg ctcactggtt caaatgctaa gggtatggat ctagggacaa ctcccggtga
3421 ctgtggctgc ccgtatattt acaaaagggg caatgactac atagtcattg gagtgcacac
3481 agcagcagcc cgaggtggta atactgtcat ctgtgccaca cagggaagtg agggtgaagc
3541 gaccctcgag ggtggagacg acaaaggaac atactgtggg gcacccatcc tgggccctgg
3601 aggggcgcca aagttaagca caaaaaccaa attttggaga tcatcaaaca cgccccttcc
3661 accagggaca tatgagcctg cctaccttgg cggtcgtgat ccgcgtgtaa agggtgggcc
3721 ttccctacaa caagtcatga gagaccagtt aaagcccttc accgagccta ggggtaagcc
3781 cccgagacct agtgtgttgg aggcagccaa acagaccatc atcaacgttc tcgagcaaac
3841 tttggatccc ccacaaaaat ggacgtacgc acaggcgtgc gcttcacttg ataaaaccac
3901 ctctagtggg cacccctatc acgctcgaaa gaatgaattc tggaacggtg agacctttac
3961 cggtaagttg gcagaccaag catcaaaagc aaacttaatg tttgaggaag ggaaacatat
4021 gacaccagtg tatacagcag cccttaagga tgagttggtt aaaaccgaca aaatctatgg
4081 gaagatcaag aaacgcctgc tttggggctc tgatttatcc accatggtcc gatgtgctag
4141 ggcctttggt ggactcatgg acgagatgaa ggcgcactgc atatcgctcc caatccgagt
4201 tggcatgaat atgaatgagg atggcccaat aatatttgag aagcactcca gatataaata
4261 tcactatgat gcagattact ctcgctggga ctcaacacaa cagagggctg ttctagcagc
4321 ggccttggaa ataatggtca gattctctgc agaaccgcaa ctggcccaaa cagttgctga
4381 ggatctgctg gcccccagtg tagtagatgt cggagacttc aaaatttcaa taaatgaggg
4441 actcccttct ggtgtaccat gcacttccca gtggaattcc atctcacatt ggttactgac
4501 tctctgtgct ttgtctgaag tcaccaatct gtctcctgac atcgtgcagg caaattctat
4561 gttctcattt tacggtgatg acgagatcgt cagcaccgat ataaaattgg accctgaaaa
4621 gttgaccacc aaattgaggg agtatggtct aaaaccaact cgcccagaca aaaccgaggg
4681 gcccctgatc atcagtgagg atttggacgg tctcaccttc cttcggagga cggtttctcg
4741 tgacccagct ggttggtttg gaaagttaga tcaaagctca atactaagac agatgtattg
4801 gaccagagga ccaaaccatg aagaccccaa tgagacaatg ataccccact ctcaaagacc
4861 catacagctc atggcactgc ttggtgaggc ctcccttcac ggaccctctt tctacagcaa
4921 gattagtaaa ttggtcataa ctgaactcaa agaaggtggg atggactttt acgtgccaag
4981 acaggagccc atgttcagat ggatgaggtt ttctgacttg agcacgtggg agggcgatcg
5041 caatctggct cccagttttg tgaatgaaga tggcgtcgaa tgacgccgct ccatctactg
5101 atggtgcagc cggcctcgtg ccagaaagta ataatgaggt catggctctt gaacccgtgg
5161 ctggcgccgc cttggcagcc ccagtcaccg gtcaaacaaa tataatagac ccttggatta
5221 gagcaaattt tgtccaggcc cccaatggtg aatttacagt ctctccccgt aactcccctg
5281 gtgaagtgct attgaatcta gagttgggtc cagaattaaa tccttatctg gcacatttag
5341 caagaatgta caatgggtat gccggtggga tggaggtgca ggtcatgttg gctgggaatg
5401 cgttcacagc cggcaagtta gtcttcgccg ccgtgccacc ccacttcccg gtcgaaaacc
5461 ttagcccaca gcaaattacc atgttccctc atgtgattat agatgtcagg actttggaac
5521 ctgttttatt accattacct gatgttagga ataacttctt ccattataat cagaaagatg
5581 atcccaagat gagaattgtg gctatgcttt acacccccct taggtctaat ggttcaggcg
5641 atgatgtgtt tacagtctcc tgcagggtgt tgactagacc ctcccctgat tttgatttca
5701 catatctggt gccaccaaca gtggaatcta aaacaaaacc attcactctc ccaatcctca
5761 cgcttgggga actttccaat tctagattcc cagtgtccat agaccagatg tacaccagcc
5821 ccaatgaagt catatcagtg cagtgtcaaa atggcaggtg cacactggat ggggaactcc
5881 aaggaacaac acaactccaa gtcagtggca tttgtgcttt caagggagaa gtgactgccc
5941 acttgcatga caatgaccac ctgtataatg tcaccatcac aaatttgaat gggtcccctt
6001 ttgacccctc cgaggacatc cccgcccctc tgggcgtacc tgactttcag ggaagggtct
6061 ttggtgtcat ctcccaaaga gacaaacaca acacccctgg acacaatgaa ccagcaaaca
6121 gggcacacga tgccgtggtc cctacttata cagcacagta taccccaaaa ttgggtcaga
6181 ttcaaattgg cacatggcag actgacgatc tcgcagtcaa ccaaccagtc aaattcaccc
6241 cagttggact taatgacact gaccatttta accaatgggt ggtccccagg tatgctggtg
6301 ccctaaacct taacacaaac ctcgcccctt ctgttgctcc agtatttcca ggggagcgtc
6361 tgctcttttt cagatcatac atccccctca agggcggtta tggaactcca gccatcgatt
6421 gcctactgcc acaagagtgg gtgcaacatt tttatcagga agcagcccct tcgatgagtg
6481 aggtggccct tgtcagatac atcaacccgg acactggtcg ggcactgttt gaggccaaac
6541 tccacagagc tggtttcatg acagtctcaa gcaacaccag tgccccggtg gttgtgcctg
6601 ccaacggata cttcaggttt gattcttggg tgaaccaatt ctattctctc gcccccatgg
6661 gaactggaaa tgggcgcaga aggattcaat aatggctgga gcttttgtag ctggtcttgc
6721 aggggacgtg ctcagcaatg ggctcagttc attaattaat gcaggtgcta atgcaataaa
6781 tcagagggca gaatttgatt ttaatcagag attacagcaa aactctttca atcatgataa
6841 ggagatgttg caggcccagg tccaggcaac taagcagctg caggcagaca tgatggctat
6901 aaaacagggg gtcctggccg ctggcggctt ttcccctgct gatgcagcca gaggtgctgt
6961 gaacgcgccc atgacacagg cgctggattg gaacggcaca aggtattggg caccaggctc
7021 catgaggact acagcctact ctgggagatt cacatcaacc gccccagtga ggcaggctga
7081 ttttcagcac acccaaagcc ggccctcgag tggttcttct gtgtcctcct ttgctactca
7141 gtcttcaagg ccgaccctga ctacaaccac tgggtcctca tatggcacag cctcatcaaa
7201 ttcgactcgc agcacaaacc tctcccaatc aacggtctcc agggctacat ctaggactgg
7261 tgaatgggtt agagaccaaa acagaaattt ggaaccttac atgcatggtg ccttacagac
7321 ggcctttgtc accccgcctt ccagcagggc gtctgatggg acggtctcaa ccgttccaaa
7381 aggtgttttg gactcctgga cacctgcgtt taacacccgc aggcagccgc tttttgcaca
7441 cctccgtaag aggggggagt cacaagctta gtgaaaaggt gaaaatttat ttaaaatgga
7501 ttgattttta ccttttaaaa aaaaaaaaaa a
//