Typing tool
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Typing tool
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Complete norovirus genomes
| LC209463 | GII.2 | |
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| GII.P2 |
ORF1: 5..5104
ORF2: 5085..6713
ORF3: 6713..7492
LOCUS LC209463 7536 bp RNA linear VRL 14-DEC-2017
DEFINITION Norovirus Hu/GII/JP/2008/GII.P2_GII.2/Hokkaido-15 RNA, complete
genome.
ACCESSION LC209463
VERSION LC209463.1
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2008/GII.P2_GII.2/Hokkaido-15
ORGANISM Norovirus Hu/GII/JP/2008/GII.P2_GII.2/Hokkaido-15
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 7536)
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..7536
/organism="Norovirus
Hu/GII/JP/2008/GII.P2_GII.2/Hokkaido-15"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2008/GII.P2_GII.2/Hokkaido-15"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:1934289"
/country="Japan: Hokkaido"
/collection_date="2008"
/note="genotype: GII.P2_GII.2"
gene 5..5104
/gene="POL"
CDS 5..5104
/gene="POL"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BBB87007.1"
/translation="MKMASNDASAAAAVNSNNDNTKSSSDGMLNNMAVTLKRALGARP
KQPAPGEKPPRPPRPPTPELVKRIPPPPPNDGDEPTVMFSTVGGVSGLPELTTVGQPP
EANTAFSVPPLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
IAKVELTPLSLYWRPVYTPQYLIPPDTLRKLHGELFPYTAFENNCYAFCCWVLDLNDS
WLSRRMISRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIVLCALSSLFTRPIKDIIGK
LKPLNILNILASCDWTFAGIVESLILMAELFDVFWTPPDVSAMIAPLLGDYELQGPED
IAVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKDEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKNSLAAYMKTLDMEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGKPGIGKTHLAREL
AKKIASTLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDAIIITTNLVNPAPLDYVNFEACSRRIDFLVYADAPEVEK
AKRDFPGQPDMWKDAYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVMKTLTASSLVARA
SGLLHERLDEYELQGPPLSTFNFDRNKIAAFRQLAAENKYGLVDTMRVGNQLRNVTTM
DELKKAIKNIIIRKCQIVYSGNTYTLESDGKGKVVVERVQSTSVQINNEIAGAVHHLR
CARVRYYVKCVQEAIYSLLQIAGTVFVTSRIVSRMNIQNLWSRPLAEDADEATMKEGC
PKPREEEEFVVSSDDIKPEGKKGKNKSGRGKKHTAFSSKGLSDEEYEEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEVKIRQRIFRPTRKQRKEERANLGLV
TGSEIRKRNPDDFKPKGKLWADDDRSVDYNERISFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQGITEAFGVPIRQVQIHKSGEFCRLRFPKPIRTDVSGMILEEGAPEG
TVATILIKRTTGELMPLAARMGTHATMRIQGRVVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYIVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILG
PGNAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKTFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGYPHHVRKNEHW
NGESFTGKLADQASKANLMFEEGKHMTPVYTAALKDELVKTEKVYGNIKKRLLWGSDL
ATMVRCARSFGGLMDELKAHCVTLPIRVGMNMNEDGPIVFEKHSRYRYHYDADYSRWD
STQQRAVLAAAMEIMVKFSAEPQLAQIVAEDLLSPSVVDVGDFKISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTDLSPDIVQANSLFSFYGDDEIVSTDIKLDPEKLTGKLR
EYGLKPTRPDKTEGPLIISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQLYWTKGP
NHEDPFESMIPHSQRPIQLMSLLGEAALHEPSFYSKISKLVISELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSLVNEDGVE"
gene 5085..6713
/gene="VP1"
CDS 5085..6713
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBB87008.1"
/translation="MKMASNDAAPSTDGAAGLVPESNNEVMALEPVAGAALAAPVTGQ
TNIIDPWIRANFVQAPNGEFTVSPRNAPGEVLLNLELGPELNPYLAHLARMYNGYAGG
MEVQVMLAGNAFTAGKLVFAAVPPHFPVENLSPQQITMFPHVIIDVRTLEPVLLPLPD
VRNNFFHYNQKDDPKMRIVAMLYTPLRSNGSGDDVFTVSCRVLTRPSPDFDFTYLVPP
TVESKTKPFTLPILTLGELSNSRFPVSIDQMYTSPNEIVSVQCQNGRCTLDGELQGTT
QLQVSGICAFKGEVTAHLHDNDHLYNVTITNLNGSPFDPSEDIPAPLGVPDFQGRVFG
IISQRDKHNSPGHNEPANRGHDAVVPTYTAQYTPKLGQIQIGTWQTDDLTVNQPVKFT
PVGLNDTEHFNQWVVPRYAGALNLNTNLAPSVAPVFPGERLLFFRSYIPLKGGYGNPA
IDCLLPQEWVQHFYQEAAPSMSEVALVRYINPDTGRALFEAKLHRAGFMTVSSNTSAP
VVVPANGYFRFDSWVNQFYSLAPMGTGNGRRRVQ"
gene 6713..7492
/gene="VP2"
CDS 6713..7492
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BBB87009.1"
/translation="MAGAFVAGLAGDVLSNGLSSLINAGANAINQRAEFDFNQRLQQN
SFNHDKEMLQAQIQATKQLQADMMAIKQGVLTAGGFSPADAARGAVNAPMTQALDWNG
TRYWAPGSMKTTSYSGRFTSTAPVRQADFQHTQSRPSSGSSVSSFATQSSRPTLTTTT
GSSHGIASSNSTRSTNLSQSTVSRATSRTGEWVRDQNRNLGPYMHGALQTAFVTPPSS
RASDGTVSTVPKGVLDSWTPAFNTRRQPLFAHLRKRGESQA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc tgctgccgct gctgttaaca gcaacaacga
61 caacacaaaa tcttcaagtg acggaatgct taacaacatg gccgtcaccc tcaaacgagc
121 ccttggggcc cggcccaaac agccggcccc gggggaaaaa cccccaagac cccctagacc
181 accaacgcca gaattagtca aaagaatccc ccccccacca cccaatgatg gggacgaacc
241 aaccgtgatg tttagcactg taggtggtgt gtctggccta cctgagctca caacagtcgg
301 tcaaccgcct gaagctaaca cggcctttag tgtgcctccc ctcagccaaa gggaaaacag
361 ggacgctaag gaaccgctaa ctgggactat tctggaaatg tgggatgggg agatctatca
421 ttatggactg tatgtggaaa gagggcttgt attaggcgtg cacaagccac cagctgccat
481 tagcatagcc aaagtggaat taacgcccct ttcactgtat tggagacctg tgtacacgcc
541 tcaatacctt atacctcctg acaccttgag gaaactccat ggtgaattgt ttccctatac
601 agcctttgaa aacaactgtt atgccttctg ctgttgggtt ttggatctta acgattcatg
661 gctaagcagg aggatgatta gtaggaccac tggcttcttc aggccctacc aagagtggaa
721 caggaagccc cttccaacta tggatgactc aaaattgaag aaggtcgcaa acatcgttct
781 gtgtgcattg tcatcattgt ttactagacc catcaaggat ataattggca aacttaaacc
841 cctcaacatc ctaaacattt tggcctcatg cgattggacc ttcgctggca tagtggagtc
901 actaatcctc atggctgaac tctttgatgt gttctggaca cccccagatg tgtctgcaat
961 gatcgcaccc ctcctcggtg actacgagct acaaggcccc gaagacatcg ctgtggagct
1021 cgtgcccgtt gtgatgggtg ggataggtct ggtgttggga ttcaccaaag agaaaatagg
1081 caagatgctc tcctctgcag catcaactct gagggcatgc aaagatctcg gagcctacgg
1141 attagagatc ttgaaactag tcatgaaatg gtttttccca aagaaggatg aggccaacga
1201 actggctatg gtcagagcca ttgaagacgc tgtattagac ctggaggcca ttgagaacaa
1261 ccatatgacc actctattga aagataagaa cagccttgca gcctacatga agaccttgga
1321 catggaagaa gagaaagcta ggaagttatc caccaaatca gcctcccctg atattgtggg
1381 cacaataaat gccctgctgg ccaggatcgc cgccgcgcgc tccttggtcc atagggccaa
1441 ggaggagctc tccagcagac caagaccggt cgttctaatg atctctggta aaccagggat
1501 aggaaagacc cacctggcca gagaactggc aaagaaaatt gcctcgacac tcacagggga
1561 ccagagggtg ggcctcatcc cacggaacgg agtcgaccac tgggacgcct acaaaggcga
1621 gagagtggtg ctctgggatg attacgggat gagcaacccc atccacgatg cactgaggtt
1681 gcaggaactg gcagacacat gtccattaac tctgaattgt gacaggattg aaaacaaggg
1741 gaaagtcttc gatagtgacg cgatcataat cactaccaac ttggtcaatc ccgcgccgct
1801 ggattacgtc aactttgagg cctgctccag acgtatagac ttccttgtgt atgctgatgc
1861 cccagaagtc gagaaggcaa agcgggactt ccctggtcaa ccggacatgt ggaaggacgc
1921 ctatcgctct gacttctcac acattaaact acaacttgca ccacaaggtg ggtttgacaa
1981 aaatggtaac accccacatg gtaaaggagt gatgaagact ctcactgcca gttcactagt
2041 tgcgcgtgcc tctggtctcc tgcatgagag attagatgag tacgagctac agggtccgcc
2101 cctctcaacc ttcaactttg accgcaacaa aattgcagcg ttcaggcaac tcgccgctga
2161 aaataagtat ggtctggtgg acactatgag ggtgggcaac cagctcagaa atgttacgac
2221 catggatgaa ctcaagaagg ctatcaagaa cattataatc agaaagtgcc agatagtcta
2281 tagtggtaac acctacacgc ttgagtccga cggcaagggt aaggttgtgg ttgagagggt
2341 gcagagcaca agcgtgcaaa ttaacaatga gatcgctggt gcagtacacc accttagatg
2401 tgccagggta aggtattatg tcaagtgtgt ccaagaggcc atttactcac tcctccaaat
2461 cgccggcacg gtgtttgtca cttcacgcat cgtaagccgc atgaacatcc aaaatttatg
2521 gtccaggcca ttagccgaag atgcagatga ggccaccatg aaagaggggt gccccaaacc
2581 tagggaagag gaggagtttg tcgtctcctc agatgacatc aagccagagg gcaagaaagg
2641 taaaaacaag agtggccggg gcaagaaaca cacggcattc tcaagtaaag gtctcagtga
2701 tgaggagtac gaagagtaca aaagaatcag agaggagaga aacggcaagt actccataga
2761 ggaataccta caagacagag acaaatatta tgaagaggtg gccattgcta gggcaactga
2821 agaagacttc tgcgaagagg aagaggttaa gattcgtcag aggatcttca gaccaacaag
2881 aaaacaacgc aaggaagaaa gagccaacct tggcctcgtc actgggtctg agatcaggaa
2941 gaggaaccca gatgacttca aaccaaaagg aaagctgtgg gccgacgatg ataggagcgt
3001 cgactacaat gaaagaatca gctttgaagc cccaccaagt atttggtcta gaattgtcaa
3061 ctttggttct ggatggggat tttgggtttc acctagcctc ttcataacat caacacatgt
3121 tatacctcaa ggcataactg aggcctttgg tgtacctata aggcaggtgc aaatacacaa
3181 gtcaggcgag ttttgtcgcc tgagattccc aaaacccatc aggacagatg tgtcaggcat
3241 gatactggag gagggagcgc ctgaaggcac tgttgccacc atactcatca aaagaaccac
3301 tggagagctg atgcctctcg cagcaagaat gggcacccat gcgaccatga gaatacaagg
3361 acgcgtggta ggcggccaga tgggaatgtt gctcactgga tctaatgcaa agagcatgga
3421 tcttggcacc acgcccggtg actgtgggtg cccctacatt tacaaaaggg gcaacgatta
3481 catagtcatt ggagttcaca cggctgccgc tcgtggcgga aacactgtca tctgcgccac
3541 acagggtagt gagggtgagg ccacgctcga gggtggtgac aacaaaggaa catactgtgg
3601 ggcgccaata ctaggccccg gaaatgcccc aaaactgagc actaaaacca aattctggag
3661 gtcctccaca acaccacttc cacccggcac atacgagccg gcgtatctgg gaggaaaaga
3721 cccccgagtc aagggtggac catctctgca acaagttatg cgagaccaac tgaaaacatt
3781 caccgaaccc cgtggtaagc caccaaaacc aagtgtcctc gaagctgcca aaaagacaat
3841 tatcaatgtg ctagagcaaa caatagaccc cccacaaaag tggacgtacg cacaagcgtg
3901 cgcgtctctc gacaaaacca catctagtgg atacccccat cacgtgcgca aaaacgaaca
3961 ctggaacggg gagtctttca caggaaaatt ggctgaccag gcatcaaaag caaatctaat
4021 gtttgaagag gggaaacaca tgaccccagt ttacacagct gcccttaagg atgagttggt
4081 caaaactgag aaagtgtatg ggaatataaa gaaaagactg ctttggggct ccgatctggc
4141 caccatggtg cggtgtgcgc gctcctttgg cggtttgatg gacgaactca aggcccactg
4201 tgtgacactt ccgataaggg ttggcatgaa tatgaatgaa gatggaccaa tagtctttga
4261 gaaacattcc agatacaggt atcactatga tgcagattat tccaggtggg attcaacaca
4321 gcagagagcc gttctggccg cggccatgga gattatggtt aaattttcag cagaaccaca
4381 gctagcccaa atagttgcag aggacctatt gtcgcctagc gtggttgacg tgggcgactt
4441 taagatttca atcaatgaag ggttaccgtc gggtgtccct tgcacctctc aatggaattc
4501 catcgcacac tggctcctca ccttatgtgc cctttctgaa gttacagacc tctctcctga
4561 tattgtgcaa gccaactccc tcttctcctt ttatggtgat gatgaaattg tgagcacaga
4621 tattaaatta gacccagaaa aactgacggg gaaattgaga gaatatggcc tcaaacccac
4681 tcgtccagac aagactgagg gacccctgat cattagtgag gatctgaatg gtctgacttt
4741 cctgaggagg accgtcactc gcgatcctgc aggatggttt ggtaagctgg accaaagctc
4801 catacttagg caattgtact ggaccaaagg ccccaatcat gaagaccctt ttgagtcaat
4861 gattccacac tcccagagac ccatacaact catgtcactc ttgggcgagg cagcactgca
4921 tgaaccatca ttctacagca agatcagcaa gcttgtgata tctgagttga aagaaggtgg
4981 aatggatttt tacgtgccca ggcaagaacc tatgtttaga tggatgagat tctcagattt
5041 gagcacgtgg gagggcgatc gcaatcttgc tcccagtctt gtgaatgaag atggcgtcga
5101 atgacgccgc tccatctact gatggtgcag ccggcctcgt gccagaaagt aataatgagg
5161 tcatggctct tgaacccgtg gctggtgccg ccttggcagc cccggtcacc ggtcaaacaa
5221 atattataga cccttggatt agagcaaatt ttgtccaggc ccccaatggt gaatttacag
5281 tctctccccg taatgcccct ggtgaagtgc tactaaatct agagttgggt ccagaattaa
5341 acccttatct ggcacattta gcaagaatgt acaacgggta tgccggtggg atggaggtgc
5401 aggtcatgtt ggctgggaac gcgttcacag ccggcaagtt ggtcttcgcc gctgtgccac
5461 ctcacttccc ggttgaaaac cttagcccac agcaaattac catgttcccc catgtgatta
5521 tagatgtaag gactttggaa cctgttttat taccactccc tgatgttaga aacaatttct
5581 tccattataa tcagaaagat gatcccaaga tgagaattgt ggctatgctt tatacccccc
5641 ttaggtctaa tggctcaggt gatgatgtgt ttacagtctc ctgcagggtt ttgactagac
5701 cctcccctga ttttgatttc acatatctgg tgccaccaac agtggaatct aaaacaaaac
5761 cattcaccct cccaatcctc acacttgggg aactttccaa ttctagattc ccagtgtcca
5821 tagaccagat gtacaccagc cctaatgaaa tcgtatcagt gcagtgtcaa aatggtaggt
5881 gcacattgga cggtgagctc caagggacaa ctcaactcca agtcagtggc atttgtgctt
5941 tcaagggaga agtgaccgcc cacttgcatg acaatgatca cctgtataat gtcactatca
6001 caaatttgaa tgggtcccct tttgacccct ccgaggacat ccctgcccct ctgggcgtac
6061 ctgactttca gggaagggtc tttggtatca tctcccaaag ggacaaacac aatagtcctg
6121 gacacaatga accagcaaac aggggacacg atgctgtggt tcctacttac acagcacagt
6181 acactccaaa attgggtcag atccaaattg gcacatggca gaccgacgat cttacagtca
6241 accaaccagt caaattcacc ccagttggac tcaatgacac tgaacatttt aaccaatggg
6301 tggtccccag atatgctggt gccctaaacc tcaacacaaa ccttgcccct tctgttgctc
6361 cagtatttcc aggggagcgc ctgctctttt tcagatcata cattcccctc aagggtggtt
6421 atggaaatcc agccattgat tgcctactac cacaagagtg ggtgcaacat ttctatcagg
6481 aagcagcccc ttcaatgagt gaggtggccc ttgtcagata catcaacccg gatactggtc
6541 gggcactgtt tgaggccaag ctccatagag ctggtttcat gacagtctca agcaacacca
6601 gtgccccggt ggttgtgcct gccaatggat acttcagatt tgactcttgg gtgaaccaat
6661 tctattctct cgcccccatg ggaactggaa atgggcgtag aagggttcaa taatggctgg
6721 agcttttgta gctggtcttg caggggacgt gctcagcaat gggcttagtt cattaattaa
6781 tgcaggtgct aatgcaataa atcagagggc agaatttgat tttaatcaga gattacagca
6841 aaattctttc aatcatgata aggagatgtt gcaggctcaa attcaggcaa ctaagcagct
6901 gcaggcagac atgatggcta taaagcaggg ggttctgacc gctggcggct tctcccctgc
6961 tgatgcagcc agaggtgctg tgaatgcgcc catgacacag gcgctggatt ggaacggcac
7021 aaggtattgg gcaccaggct ccatgaagac cacatcttac tctggaagat tcacatcaac
7081 cgccccagtg aggcaggccg acttccagca cacccaaagc cggccttcga gtggctcttc
7141 tgtgtcctcc tttgccactc agtcttcaag gccaactctg accacaacca ctgggtcctc
7201 acatggcata gcctcatcaa attcgactcg cagcacaaac ctctctcaat caacggtctc
7261 tagggccaca tctaggactg gtgagtgggt tagagaccaa aatagaaatt tgggacccta
7321 tatgcatggt gccttacaga cagcctttgt caccccacca tctagcaggg cgtctgacgg
7381 gacagtctca accgtcccaa aaggtgtttt ggactcctgg acacctgcgt tcaacacccg
7441 caggcagccg ctctttgcac acctccgtaa gaggggggag tcacaagctt agtgaaaagg
7501 tgaaaattca tttaggatga actgatctta cctttt
//