Typing tool
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Typing tool
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Complete norovirus genomes
| LC209469 | GII.2 | |
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| GII.P2 |
ORF1: 1..5093
ORF2: 5074..6702
ORF3: 6702..7481
LOCUS LC209469 7522 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2014/GII.P2_GII.2/Yamaguchi-014 RNA, nearly
complete genome.
ACCESSION LC209469
VERSION LC209469.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2014/GII.P2_GII.2/Yamaguchi-014
ORGANISM Norovirus Hu/GII/JP/2014/GII.P2_GII.2/Yamaguchi-014
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 7522)
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..7522
/organism="Norovirus
Hu/GII/JP/2014/GII.P2_GII.2/Yamaguchi-014"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2014/GII.P2_GII.2/Yamaguchi-014"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934295"
/country="Japan: Yamaguchi"
/collection_date="2014"
/note="genotype: GII.P2_GII.2"
gene <1..5093
/gene="POL"
CDS <1..5093
/gene="POL"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="BBB87025.1"
/translation="ASNDASAAAAVNSNNDNTKSSSDGMFNNVAVTLKRALGARSKQP
APREKPPRPPRPPTPELIKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPPEAN
TAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISIAK
VELTPLSLYWRPVYTPQYLISPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDSWLS
RRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCTLSSLFTRPIKDIIGKLKP
LNILNILASCDWTFAGIVESLILLAELFDVFWTPPDVSAMIAPLLGDYELQGPEDIAV
ELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKD
EANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLSTKSA
SPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLARELAKK
IASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEKAKR
DFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGL
LHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTMDEL
KKAIKNIIIRKCQIVYGGNTYTLESDGKGKVVVERVQSASVQINNEIAGAVHHLRCAR
IRYYVKCVQEAIYSLLQIAGTVFVTSRIISRMNIQNLWSRPLTEDADEATMKEGCPKP
REEEEFVVSSDDIRPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNGKYS
IEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLVTGS
EIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEGTVA
TILIKRTTGELMPLAARMGTHATMRIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGN
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHWNGE
SFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGNIKKRLLWGSDLATM
VRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWDSTQ
QRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLREYG
LKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGPNHE
DPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSLVNEDGVE"
gene 5074..6702
/gene="VP1"
CDS 5074..6702
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87026.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEVISVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
VISQRDKHNSPGHNEPANRGHDAVVPTYTSQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6702..7481
/gene="VP2"
CDS 6702..7481
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87027.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMRTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGTASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLEPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gggcgtctaa cgacgcttct gctgccgctg ctgttaacag caacaacgac aacacaaaat
61 cttcaagtga cggaatgttt aacaacgtgg ccgtcaccct taaacgagcc ctcggggccc
121 ggtccaaaca gccggccccg agggaaaaac ccccaagacc ccctagacca ccaacaccag
181 aactaatcaa aagaattccc cccccaccac ccaatgatgg ggacgaacca accgtgatgt
241 ttagcactgt aggtggtgtg tctggcctac ctgagctcac aacagtcggt caaccacctg
301 aagctaacac ggcctttagt gtgcctcccc tcagccaaag ggaaaacagg gacgctaagg
361 aaccgctaac tggaactatt ctggaaatgt gggatgggga gatctatcat tatggactgt
421 atgtggaaag agggcttgtg ttaggcgtgc acaagccgcc agctgccatc agcatagcca
481 aagtggaatt aacgcccctc tcactgtatt ggagacctgt gtacacgcct cagtacctta
541 tatcccctga caccttgagg aaactccatg gtgaattgtt tccctataca gcctttgaaa
601 acaactgtta tgccttctgc tgttgggttt tggatcttaa cgattcatgg ctaagcagga
661 ggatgattag taggaccact ggctttttca ggccctacca agagtggaac aggaagcccc
721 ttccaactat ggatgactca aaattgaaga aggtcgcaaa catcgttctg tgtacattgt
781 catcattgtt cactagaccc atcaaggata taattggcaa acttaaaccc ctcaacatcc
841 taaacattct ggcctcatgc gattggactt tcgctggcat agtagagtca ctaatcctct
901 tggctgaact ctttgatgtg ttctggacac ccccagatgt gtctgcaatg atcgcacccc
961 tcctcggtga ctacgagcta caaggccccg aagacatcgc tgtggagctc gtgcccgttg
1021 tgatgggtgg gataggtctg gtgttgggat tcaccaaaga gaaaataggt aagatgctct
1081 cctctgcagc gtcaaccctg agggcatgca aagatcttgg agcctatggg ttggagatct
1141 tgaaactagt catgaaatgg tttttcccaa agaaggatga ggccaacgaa ctggctatgg
1201 ttagagccat tgaagacgct gtattagacc tggaggccat tgagaacaac catatgacca
1261 ctctattgaa agacaagaac agccttgcag cctacatgaa gaccttggac atggaagagg
1321 aaaaagctag gaagttatcc accaaatcag cctcccctga cattgtgggc accataaacg
1381 ccctgctggc taggatcgcc gccgcgcgtt ccttagttca tagggccaag gaggagctct
1441 ctagcagacc aagaccggtc gttctgatga tctctggcaa accagggata ggaaagaccc
1501 acttggccag agaactggca aagaaaattg cctcgacgct cacaggagat cagagagtgg
1561 gcctcatccc acggaatgga gttgaccact gggacgccta caaaggtgag agagtggtgc
1621 tctgggatga ctacgggatg agcaacccca tccacgatgc gttgaggttg caggaactgg
1681 cagacacatg tccattaact ttaaattgtg acaggattga aaacaagggg aaagtcttcg
1741 atagcgacgc gatcataatt accaccaatt tggtcaatcc cgcgccgctg gattacgtca
1801 actttgaggc ctgctccaga cgtatagact tccttgtgta tgctgatgcc ccagaagtcg
1861 agaaggcaaa gcgggacttc cctggtcaac cggacatgtg gaaggacgcc tatcgctctg
1921 acttctcaca cattaaacta caacttgcac cacagggtgg gtttgacaaa aatggaaaca
1981 ccccacatgg taaaggagtg atgaagactc tcactgccag ttcactggtt gcacgtgcct
2041 ctggtctctt gcacgagaga ttagatgagt acgagctaca gggtccgccc ctctcaacct
2101 tcaactttga ccgcaacaaa attgcagcgt tcaggcaact cgccgctgaa aataagtatg
2161 gtctggtgga cacgatgagg gtgggcaacc agctcagaaa tgttacgacc atggatgaac
2221 tcaagaaggc tatcaagaac atcataatca gaaagtgcca gatagtctac ggtggtaaca
2281 cttacacgct tgagtctgac ggcaagggta aggttgtggt tgagagggtg cagagcgcca
2341 gcgtgcaaat caacaatgag atcgctggtg cagtacacca ccttagatgt gccaggataa
2401 ggtattatgt caagtgtgtc caagaggcca tctactcact cctccaaatc gccggcacgg
2461 tgtttgtcac ttcacgcatc ataagccgca tgaacatcca aaatttatgg tccaggccac
2521 taaccgaaga tgcagatgag gccactatga aagaggggtg ccccaaacct agggaagaag
2581 aggaatttgt cgtctcctca gatgacatca ggccagaggg caagaaaggt aaaaacaaga
2641 gtggccgggg caagaaacac acagcattct caagcaaagg tctcagtgat gaggagtacg
2701 aagagtacaa aaggatcaga gaggagagaa atggcaagta ctccatagag gaatacctac
2761 aggacagaga caaatactat gaagaggtgg ccattgccag ggcaactgaa gaagacttct
2821 gtgaagagga agaggttaag attcgtcaga ggatcttcag gccaacaaga aaacaacgca
2881 aggaagaaag agccaacctt ggcctcgtta ccgggtctga gatcagaaag aggaacccag
2941 atgacttcaa accaaaagga aagctgtggg ccgacgatga taggagcgtc gactacaatg
3001 aaagaatcag ctttgaggcc ccaccaagta tatggtctag aattgtcaac tttggttctg
3061 gatgggggtt ttgggtgtca cctagcctct tcataacatc aacacatgtc atacctcaag
3121 gcataactga ggcctttggt gtacctataa ggcaggtgca aatacacaaa tcaggcgaat
3181 tctgtcgcct gagattccca aaacccatca ggacagatgt gtcaggtatg atactggagg
3241 agggagcgcc tgaaggcact gttgccacca tactcatcaa aagaaccact ggagagctga
3301 tgcctctcgc agcaagaatg ggcacccacg cgaccatgag aatacaagga cgcacggtgg
3361 gcggccagat gggaatgctg ctcactgggt ccaatgcaaa gagcatggat cttggcacca
3421 cgcccggtga ctgtgggtgt ccctacattt acaaaagggg caacgactac atagtcattg
3481 gagttcacac agcagccgct cgtggcggaa acactgtcat ctgcgccaca cagggtagtg
3541 agggtgaggc cacgctcgag ggtggcgaca acaaaggaac atactgtggg gcgccaatcc
3601 taggtcccgg gaatgcccca aaactgagca ccaaaaccaa attctggagg tcctccacaa
3661 caccacttcc acccggcaca tacgagccgg catatctggg aggaaaagac ccccgagtca
3721 aaggtgggcc atctctgcaa caagttatgc gagaccaact gaagccattc accgaacccc
3781 gtggtaagcc accaaaacca agtgtcctcg aagccgctaa aaagacaatt atcaatgtgc
3841 tagagcaaac aatagacccc ccacaaaagt ggacgtacgc acaagcgtgc gcgtctcttg
3901 acaaaactac atctagtggg tacccccacc acgtgcgcaa aaacgagcac tggaatgggg
3961 aatctttcac aggaaaattg gctgaccagg catcaaaagc aaacctaatg tttgaagagg
4021 ggaagcacat gaccccagtt tacacagctg cccttaagga tgaattggtc aaaactgaga
4081 aagtgtatgg gaatataaag aagaggttgc tttggggctc tgacctggct accatggtgc
4141 ggtgcgcgcg ctcctttggc ggtttgatgg acgaactcaa ggcccactgt gtgacacttc
4201 cgataagggt tggcatgaat atgaatgaag atggaccaat agtctttgag aagcactcca
4261 gatacaggta tcactatgat gcagattatt ccaggtggga ttcaacacag cagagagccg
4321 ttctggccgc ggccatggag attatggtta aattctcagc agagccacaa ctagcccaaa
4381 tagtcgcaga ggatctattg tcgcctagcg tagttgacgt gggcgacttc aaaatttcca
4441 tcaacgaagg attgccatcg ggtgtccctt gcacctctca atggaattcc atcgcacact
4501 ggctcctcac cttatgtgcc ctttctgaag ttacagacct ctctcctgac attgtgcagg
4561 ccaactccct cttctccttt tatggtgatg atgaaattgt gagcacagat atcaaattag
4621 acccagaaaa gctgacgggg aagttgagag aatatggcct caaacccact cgtccagaca
4681 aaactgaagg ccccctgatc attagtgagg atctgaatgg cctaactttc ctgaggagaa
4741 ccgtcactcg cgaccctgca ggatggtttg gcaaactgga ccaaagttcc atacttaggc
4801 aattgtattg gaccaaaggc cccaatcatg aagatccctt tgagtcaatg attccacact
4861 cccagagacc catacaactc atgtcactct tgggcgaagc agcactgcat gaaccatcat
4921 tctacagcaa gatcagcaag cttgtgatat ctgagttgaa agaaggtgga atggattttt
4981 acgtgcccag gcaagaacct atgttcaggt ggatgagatt ctcagatttg agcacgtggg
5041 agggcgatcg caatcttgct cccagtcttg tgaatgaaga tggcgtcgaa tgacgccgct
5101 ccatctactg atggtgcagc cggcctcgtg ccagaaagta ataatgaggt catggctctt
5161 gaacccgtgg ctggcgccgc cttggcagcc ccggtcaccg gtcaaacaaa cattatagac
5221 ccttggatta gagcaaattt tgtccaggcc cctaatggtg aatttacagt ctctccccgt
5281 aatgcccctg gtgaagtgct attgaatcta gagttgggtc cagaattaaa tccttatctg
5341 gcacatttag caagaatgta caacgggtat gccggtggga tggaggtgca ggtcatgttg
5401 gctgggaacg cgttcacagc cggcaagttg gtcttcgccg ctgtgccacc tcacttcccg
5461 gttgaaaacc ttagtccaca gcaaattacc atgttccctc atgtgattat agatgtaagg
5521 actttggaac ctgttttatt accactccct gatgttagaa ataatttctt ccattataat
5581 cagaaagatg atcccaagat gagaattgtg gctatgcttt atacccccct taggtctaat
5641 ggttcaggtg atgatgtgtt tacagtctcc tgcagggtgt tgactagacc ctcccctgat
5701 tttgatttca catatctggt gccaccaaca gtggagtcta aaacaaaacc atttaccctc
5761 ccaatcctca cacttgggga actttccaat tctagattcc cagtgtccat agaccagatg
5821 tacaccagcc ccaatgaagt tatatcagtg cagtgtcaaa atggtaggtg cacactggat
5881 ggggagctcc aaggaacaac acaactccaa gtcagtggca tttgtgcttt caagggagaa
5941 gtgaccgccc atttgcatga caatgatcat ctatataatg tcaccatcac aaacttgaat
6001 gggtccccct ttgacccctc cgaggacatc cctgcccctc tgggcgtacc tgactttcag
6061 ggaagggttt ttggtgtcat ctcccaaaga gataaacaca attcccctgg acataatgaa
6121 ccagcaaata gggggcacga cgctgtggtc cctacttaca catcacagta cactccaaaa
6181 ttgggtcaga ttcaaattgg cacatggcaa accgatgatc ttacagtcaa ccaaccagtc
6241 aaattcaccc cagttggact caatgacact gaacatttta accaatgggt ggtccccaga
6301 tatgctggtg ctctaaacct taacacaaac cttgcccctt ctgttgctcc agtatttcca
6361 ggggagcgcc tgctcttttt tagatcatac atccccctca agggtggtta tggaaatcca
6421 gccattgatt gcctactacc acaagagtgg gtgcagcatt tctatcagga agcagcccct
6481 tcaatgagtg aggtggccct tgtcagatac atcaacccgg atactggtcg tgcactgttt
6541 gaggccaaac tccacagagc tggtttcatg acagtctcaa gcaacaccag tgccccggtg
6601 gttgtgcctg ccaacggata cttcagattt gattcttggg tgaaccaatt ctattctctc
6661 gcccccatgg gaactggaaa tgggcgtaga agggttcaat aatggctgga gcttttgtag
6721 ctggtcttgc aggggacgtg ctcagcaatg ggctcagttc attaattaat gcaggtgcta
6781 atgcaataaa tcagagggca gaatttgatt ttaatcagag attacagcaa aattctttta
6841 atcatgataa ggagatgttg caggctcaga ttcaggcaac taagcagctg caggcagaca
6901 tgatggctat aaagcagggg gtcctgaccg ctggcggctt ttcccctgct gacgcagcca
6961 gaggtgctgt gaatgcgccc atgacacagg cgctggattg gaacggcaca aggtattggg
7021 caccaggctc catgaggacc acatcttact ctggaagatt cacatcaacc gccccagtga
7081 ggcaggccga tttccagcac acccaaagcc ggccttcgag tggctcttct gtgtcctcct
7141 ttgctactca gtcttcaagg ccaactctga ctacaaccac tgggtcctca catggcacag
7201 cctcatcaaa ttcgactcgc agcacaaacc tctcccaatc aacggtctct agggccacat
7261 ctaggactgg tgagtgggtt agagatcaaa atagaaattt ggaaccctat atgcatggtg
7321 ccttacagac agcctttgtc accccacctt ccagcagggc gtctgacgga acggtctcaa
7381 ccgtcccaaa aggtgttttg gactcctgga cacctgcgtt caacacccgc aggcagccgc
7441 tttttgcaca cctccgtaag aggggggagt cacaagctta gtgaaaaggt gaaaatttat
7501 ctaaaatgaa ttgatcttac ct
//