Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| LC209474 | GII.2 | |
|
|---|---|---|---|
| GII.P2 |
ORF1: 1..5089
ORF2: 5070..6698
ORF3: 6698..7477
LOCUS LC209474 7521 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2010/GII.P2_GII.2/Hiroshima-17 RNA, nearly
complete genome.
ACCESSION LC209474
VERSION LC209474.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2010/GII.P2_GII.2/Hiroshima-17
ORGANISM Norovirus Hu/GII/JP/2010/GII.P2_GII.2/Hiroshima-17
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 7521)
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..7521
/organism="Norovirus
Hu/GII/JP/2010/GII.P2_GII.2/Hiroshima-17"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2010/GII.P2_GII.2/Hiroshima-17"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934300"
/country="Japan: Hiroshima"
/collection_date="2010"
/note="genotype: GII.P2_GII.2"
gene <1..5089
/gene="POL"
CDS <1..5089
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBB87040.1"
/translation="SNDASAAAAANSNNDNAKSSSDGMLNNMAVTLKRALGARPKQPA
PREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPEANT
AFSVPPLSLRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISVAKV
ELTPLSLYWRPVYTPQYLIPPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLSR
RMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGKLKPL
NILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIAVE
LVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKDE
ANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSAS
PDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKKI
ASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTL
NCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRD
FPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLL
HERLDEYELQGPSLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDELK
KAIKNITIRKCQIVYGGNTYTLESDGKGKVVVERVQSVSVQINNEIAGAVHHLRCARI
RYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLTEDADEATMKEGCPKPR
EEEEFVVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYSI
EEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGSE
IRKRNPDDFKPRGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLFI
TSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVAT
ILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCP
YIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNA
PKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKP
PKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWNGES
FTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGKIKKRLLWGSDLATMV
RCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQQ
RAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQWN
SIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYGL
KPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHED
PFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMFR
WMRFSDLSTWEGDRNLAPSLVNEDGVE"
gene 5070..6698
/gene="VP1"
CDS 5070..6698
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87041.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPIENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNITITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGYNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVSQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6698..7477
/gene="VP2"
CDS 6698..7477
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87042.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFTTQSSRPTLTTTT
GSSHGTASSNSTRSTNLSQSTVSRAASRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtctaacgac gcttctgctg ccgctgctgc aaacagcaac aacgacaacg caaaatcttc
61 aagtgacgga atgcttaaca acatggccgt cactcttaaa cgagccctcg gggcccggcc
121 caaacagccg gccccaaggg aaaaaccccc aagaccccct agaccaccaa caccagaact
181 aatcaaaaga atcccccccc caccacccaa tgatggggac gaaccaaccg tgatgtttag
241 cactgtaggt ggtgtgtctg gcctacctga gctcacaaca gtcggccaac cacctgaagc
301 taacacggcc tttagtgtgc ctcccctcag tctaagggaa aacagggacg ctaaggaacc
361 gttgactgga actattctgg aaatgtggga tggggaaatt tatcattatg gactgtatgt
421 ggaaagaggg cttgtgttag gcgtgcacaa gccgccagct gccatcagcg tagccaaagt
481 ggaactgacg cccctctcac tgtactggag acctgtgtac acgcctcagt accttatacc
541 tcctgacacc ttgaggaaac tccatggtga attgtttccc tatacagcct ttgaaaacaa
601 ctgttatgcc ttctgctgtt gggttttgga ccttaacgac tcatggttaa gcaggaggat
661 gattagtagg accactggct ttttcaggcc ctaccaagag tggaacagga agccccttcc
721 aactatggat gactcaaaat tgaagaaggt cgcaaacatc gttctgtgtg cattgtcatc
781 attgttcact aggcccatca aggatataat tggcaaactt aaacccctca acatcctaaa
841 cattctggcc tcatgcgact ggaccttcgc tggcatagta gagtcactaa tcctcttggc
901 tgaactcttt gatgtattct ggacaccccc agatgtgtct gcaatgatcg cacccctcct
961 cggtgactac gagctacaag gccccgaaga catcgctgtg gagctcgtgc ccgttgtgat
1021 gggtgggata ggtctggtgt tgggattcac caaagagaaa ataggcaaga tgctctcctc
1081 tgcagcatca actctgaggg catgcaaaga tcttggagcc tacggattgg agatcctaaa
1141 actagtcatg aaatggtttt tcccaaagaa ggatgaggcc aacgaactgg ctatggttag
1201 agccattgaa gacgctgtat tagacctgga ggccattgaa aacaaccata tgaccactct
1261 gttgaaagac aagaacagcc ttgcagccta catgaagacc ttagatatgg aagaggaaaa
1321 agctaggaag ttatccacca aatcagcctc ccctgacatt gtgggcacca taaacgccct
1381 gctggctagg atcgctgccg cgcgttcttt agttcatagg gccaaggagg agctctccag
1441 cagaccaaga ccggtcgttt tgatgatctc tggcaaacca gggataggaa agacccactt
1501 ggccagggaa ctggcaaaga aaattgcctc gacactcaca ggagaccaaa gggtgggcct
1561 cattccacgg aatggagtcg accactggga tgcctacaag ggtgagagag tggtgctctg
1621 ggatgattac gggatgagca accccatcca cgatgcgctg aggttgcagg aactggcgga
1681 tacatgtcca ttaactctga attgtgacag gattgaaaac aaagggaagg tttttgatag
1741 cgacgcgatc ataatcacca ccaatttggt caatcctgcg ccgctggatt atgtcaactt
1801 tgaggcctgc tccaggcgta tagacttcct tgtgtatgct gatgccccag aagtcgagaa
1861 agcaaagcgg gacttccctg gtcaaccgga catgtggaag gacgcctatc gttctgactt
1921 ctcacacatt aaactacaac ttgcaccaca aggtgggttt gacaaaaatg gtaacacccc
1981 acatggtaaa ggagtgatga agactctcac tgccagttca ctggttgcgc gtgcctctgg
2041 tctcttgcac gaaagattgg atgagtacga gttacagggt ccgtccctct caaccttcaa
2101 ctttgaccgc aacaaaattg cagcgtttag acaactcgcc gctgaaaata agtatggtct
2161 ggtggacacg atgagggtgg gcaaccagct cagaaatgtt acgaccatgg atgaactcaa
2221 gaaggccatc aagaacatca caatcagaaa gtgccagata gtctatggtg gcaacactta
2281 cacgcttgag tctgacggca agggtaaggt tgtagttgag agggtgcaga gcgtcagcgt
2341 gcaaatcaac aatgagatcg ctggtgcagt gcaccacctt agatgtgcca ggataaggta
2401 ttatgtcaag tgtgttcaag aggccatcta ctcacttctc caaatcgccg gcacggtgtt
2461 tgtcacttca cgcatcgtaa gccgcatgaa catccaaaat ttatggtcca ggccattaac
2521 tgaagatgca gatgaggcca ctatgaaaga ggggtgtccc aaacctaggg aagaagagga
2581 atttgtcgtc tcctcagatg acatcaagcc agagggcaag aaaggtaaaa acaagagtgg
2641 ccggggcaag aaacacacgg cattctcaag caaaggtctt agtgatgagg agtacgaaga
2701 gtacaaaagg atcagagagg agagaaatgg taagtactcc atagaggaat acctacagga
2761 cagggacaaa tactatgaag aggtggccat tgccagggca actgaagaag acttctgtga
2821 agaggaagag gttaagattc gtcagaggat cttcaggcca acaagaaaac aacgcaagga
2881 agaaagagcc aaccttggcc tcgtcaccgg gtctgagatc aggaagagga atccagatga
2941 cttcaaacca agaggaaagc tgtgggccga cgatgacagg agcgtcgact acaatgaaag
3001 aatcagcttt gaggccccac caagcatttg gtctagaatt gtcaactttg gttctggatg
3061 ggggttttgg gtgtcaccta gcctcttcat aacatcaaca catgtcatac ctcaaggcat
3121 aactgaagcc tttggtgtac ctataaggca ggtgcaaata cacaaatcag gcgaattctg
3181 tcgcctaaga ttcccaaaac ccatcaggac agatgtatca ggtatgatac tggaggaggg
3241 agcgcctgaa ggcactgttg ccaccatact catcaaaaga accactggag aactgatgcc
3301 tctcgcagca agaatgggca cccacgcgac catgagaata caaggacgca cggtgggcgg
3361 ccagatggga atgctgctca ctgggtccaa tgcaaagagc atggatctcg gcaccacgcc
3421 cggtgactgt gggtgtccct acatttacaa aagaggcaat gactacatag tcattggagt
3481 tcacacagca gccgctcgtg gcggaaacac tgtcatctgc gccacacaag gaagtgaggg
3541 tgaggccacg ctcgagggtg gtgacaacaa aggaacatac tgtggggcgc caatcctagg
3601 ccccgggaat gccccaaagc tgagcactaa aaccaaattt tggaggtctt ccacaacacc
3661 actcccaccc ggcacatacg agccggcata tctgggagga aaagaccccc gagtcaaagg
3721 tggaccatct ctgcaacaag ttatgcgaga ccaactgaag ccatttaccg aaccccgtgg
3781 taagccacca aaaccaagtg ttcttgaagc tgctaaaaag acaattatca atgtgctaga
3841 gcaaacaata gaccccccac aaaagtggac gtacgctcaa gcgtgcgcgt ctctcgacaa
3901 aaccacatct agtgggtacc cccaccacgt gcgcaaaaac gagcactgga atggggaatc
3961 tttcacagga aaattggctg accaggcatc aaaagcaaac ctaatgtttg aagaggggaa
4021 gcacatgacc ccagtttaca cagctgccct taaggatgag ttggtcaaaa ccgagaaagt
4081 atacggaaag ataaagaaga ggttgctttg gggctctgac cttgccacca tggtacggtg
4141 cgcgcgctcc tttggcggtt tgatggacga actcaaggcc cattgtgtga cacttccgat
4201 aagggttggc atgaacatga atgaagatgg accaatagtc tttgagaaac attccagata
4261 caggtatcac tatgatgcag attattccag gtgggattca acacagcaga gagccgtcct
4321 ggccgcggcc atggagatta tggttaaatt ctcagcagaa ccacaactag cccaaatagt
4381 tgcagaggat ctattgtcgc ctagtgtagt tgacgtgggc gacttcaaaa tttccatcaa
4441 tgaaggatta ccatcgggtg tcccttgcac ctctcaatgg aattcaattg cacactggct
4501 cctcacctta tgtgcccttt ctgaagttac agacctctct cctgacattg tgcaggccaa
4561 ctccctcttc tccttctatg gtgatgatga aattgtgagc acagatatta aattagaccc
4621 agaaaagctg acggggaagt tgagagaata tggcctcaaa cccacccgtc cagacaaaac
4681 tgagggcccc ctgatcatta gcgaggatct gaatggcctg actttcctga ggagaaccgt
4741 cactcgcgac cctgcaggat ggtttggcaa actggaccaa agttctatac ttaggcaatt
4801 gtattggacc aaaggcccca atcatgaaga cccctttgag tcaatgattc cacactccca
4861 gagacccata caactcatgt cactcttggg cgaagcagca ctgcatgaac catcatttta
4921 cagcaagatc agcaagcttg tgatatctga actgaaagaa ggtggaatgg atttttacgt
4981 gcccaggcaa gaacctatgt ttaggtggat gaggttctca gatttgagca cgtgggaggg
5041 cgatcgcaat cttgctccca gtcttgtgaa tgaagatggc gtcgaatgac gccgctccat
5101 ctactgatgg tgcagccggc ctcgtgccag aaagtaataa tgaggtcatg gctcttgaac
5161 ccgtggctgg tgccgccttg gcagccccgg tcaccggtca aacaaatatt atagaccctt
5221 ggattagagc aaattttgtc caggccccca atggtgaatt tacagtctct ccccgtaatg
5281 cccctggtga agtgctattg aatctagagt tgggtccaga attaaatcct tatctggcac
5341 atttagcaag aatgtacaac gggtatgccg gtgggatgga ggtgcaggtc atgttggctg
5401 ggaacgcgtt cacagccggc aagttggtct tcgccgctgt gccacctcac ttcccgattg
5461 aaaaccttag cccacagcaa attaccatgt ttcctcatgt gattatagat gtaaggactt
5521 tggaacccgt tttattacca ctccctgatg ttagaaataa tttcttccac tataatcaga
5581 aagatgatcc caagatgaga atcgtggcta tgctttacac cccccttagg tctaatggtt
5641 caggtgatga cgtattcaca gtctcctgca gggtgttgac tagaccctcc cctgattttg
5701 atttcacata cctggtgcca ccaacagtgg agtctaaaac aaaaccattc accctcccaa
5761 ttctcacact tggggaactt tccaattcta gattcccagt gtccatagac cagatgtaca
5821 ccagccccaa tgaagtcata tcagtgcagt gtcaaaatgg taggtgcaca ctggatgggg
5881 agctccaagg aacgacccaa ctccaggtca gtggcatttg tgcttttaag ggagaagtaa
5941 ctgcccactt gcatgacaat gatcacctat acaacatcac catcacaaac ttgaatgggt
6001 ccccttttga tccctccgag gacatccctg cccccctggg cgtacctgac tttcagggaa
6061 gagtctttgg tatcatctcc caaagagaca agcacaattc ccctggatat aatgaaccag
6121 caaatagagg acacgacgct gtggtcccta cctacacagc acagtacact ccaaaattgg
6181 gtcagattca aattggcaca tggcagaccg acgatctcac agtcagccaa ccagtaaaat
6241 tcaccccagt tggactcaat gatactgaac attttaacca atgggtggtt cctagatatg
6301 ctggtgctct aaatcttaat acaaatcttg ccccttctgt tgcaccagta tttccagggg
6361 agcgcctact ctttttcaga tcatatatcc ccctcaaggg tggttatgga aatccagcca
6421 ttgattgcct actaccacaa gagtgggtgc aacatttcta ccaggaagca gccccttcaa
6481 tgagtgaggt ggcccttgtc agatacatca acccggatac tggtcgggca ctgttcgagg
6541 ccaagctcca cagagctggt ttcatgacag tttcaagcaa caccagtgcc ccggtggttg
6601 tgcctgccaa cggatacttt agatttgatt cttgggtgaa ccaattctat tctctcgccc
6661 ccatgggaac tgggaatggg cgtagaaggg ttcaataatg gctggagctt tcgtagctgg
6721 tcttgcaggg gacgtgctca gcaatgggct cagttcatta attaatgcag gtgctaatgc
6781 aataaatcag agggcagaat ttgattttaa tcagagatta cagcaaaatt ctttcaatca
6841 tgacaaggag atgttgcagg ctcagattca ggcaactaag cagctgcagg cagacatgat
6901 ggctataaag cagggggtct tgaccgctgg cggcttttcc cctgctgacg cagccagagg
6961 tgctgtgaat gcgcccatga cacaggcgct ggattggaat ggcacaaggt attgggcacc
7021 aggctccatg aggaccacat cttactccgg aagattcaca tcaaccgccc cagtaaggca
7081 ggccgatttc caacacaccc aaagccggcc ttcgagtggc tcttctgtgt cttcctttac
7141 tactcagtct tcaaggccaa ctctgacaac aaccactgga tcctcacatg gcacagcctc
7201 atcaaattcg actcgcagca caaacctctc ccaatcaacg gtctctaggg ctgcatctag
7261 aactggtgag tgggttaggg atcaaaatag aaatttggaa ccctatatgc atggtgccct
7321 acagacagct tttgtcaccc cgccttccag cagggcgtct gacgggacgg tctcaaccgt
7381 cccaaaaggt gttttggact cctggacacc tgcgttcaac acccgcaggc agccgctttt
7441 tgcacacctc cgtaagaggg gggagtcaca agcttagtga aaaggtgaaa atttatctaa
7501 aatgaattga tcctaccttt t
//