Typing tool
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Typing tool
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Complete norovirus genomes
| LC421228 | GII.4 Sydney | |
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| GII.P12 |
ORF1: 1..5080
ORF2: 5067..6683
ORF3: 6683..7400
LOCUS LC421228 7400 bp RNA linear VRL 28-SEP-2018
DEFINITION Norovirus GII Hu/GII.P12-GII.4sydney_2012/330078/Tokyo/2017/ POL,
VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1,
small basic protein VP2, partial and complete cds.
ACCESSION LC421228
VERSION LC421228.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Nagano,M., Somura,Y., Nagashima,M., Oda,M., Asakura,H., Yaoita,Y.,
Shinkai,T. and Sadamasu,K.
TITLE A food poisoning outbreak by recombinant of norovirus GII.P12_GII.4
sydney_2012 in Tokyo
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7400)
AUTHORS Oda,M., Nagashima,M., Somura,Y., Nagano,M., Asakura,H., Yoita,Y.,
Shinkai,T. and Sadamas,K.
TITLE Direct Submission
JOURNAL Submitted (23-AUG-2018) Contact:Mayuko Oda Tokyo Metropolitan
Institute of Public Health, Department of Microbiology; 3-24-1
Hyakunincho, Shinjyuku-ku, Tokyo 169-0073, Japan
FEATURES Location/Qualifiers
source 1..7400
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P12-GII.4sydney_2012/330078/Tokyo/2017/"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Japan:Tokyo"
/collection_date="2017-12"
/note="genotype: GII.P12_GII.4"
gene <1..5080
/gene="POL"
CDS <1..5080
/gene="POL"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="BBG06457.1"
/translation="ASAAVAANSNNDNAKSSSDGVLSSMAVTFKRALGARQKQPPPRE
IPQRPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVWQPDETNTAFS
VPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELA
PLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLCRRMI
QRTTGFFRPYQEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKVRPLNIL
NILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYVLQGPEDLAVELVP
VVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANE
LAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDI
VGTINALLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAAS
LTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCD
RIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPG
QPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHER
LDEYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTMSELKQAL
KNVAIKSCQIVYGGCTYRLESDGKGDVKVDRVQNATVQTNNELAGALHHLRCARIRYY
VKCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEIASKDGCPKPQDDE
EFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEY
LQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRK
RNPDDFKPKGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITST
HVIPQGAQEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLI
KRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIY
KRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKL
STKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKP
SVLEAAKKTIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTG
KLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCA
RAFGGLMEELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAV
LAAALEIMVKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIA
HWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPT
RPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSE
TMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMR
FSDLSTWEGDRNLAPSFVNEDGVE"
gene 5067..6683
/gene="VP1"
CDS 5067..6683
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBG06458.1"
/translation="MASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQQN
VIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGGFE
VQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPDVR
NNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPPTV
ESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTTQL
SPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVLTQ
TTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDGGT
THRNEPQQWVLPSYSGRSTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLDCL
LPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLVIP
PNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6683..>7400
/gene="VP2"
CDS 6683..>7400
/gene="VP2"
/codon_start=1
/product="small basic protein VP2"
/protein_id="BBG06459.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGASPGRANLRDAVPARGPSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSSARTRSWVEDQNRNLSPFMRGVHNI
SFVTPPSSRSSSQGTVSTVPK"
ORIGIN
1 cgcttccgct gccgttgctg ctaatagcaa caacgacaac gcaaaatctt caagtgacgg
61 agtgctttct agcatggctg tcacttttaa acgagccctc ggggcgcggc aaaaacagcc
121 tcccccgagg gaaataccac aaaggcctcc acggccaccc accccagaac tggtcaaaaa
181 gatccctcct cccccaccca atggggagga tgaactagtg gtctcttata gcgccaaaga
241 tggcgtttct ggtttgcctg aacttaccac tgtctggcaa ccggatgaga ccaacacggc
301 gttcagtgtt ccccctctca accagaggga gaacagggac gccaaggagc cgctgaccgg
361 aacaatcctg gaaatgtggg acggggagat ctatcattat ggtctgtatg tggagcgagg
421 ccttgtactt ggtgtgcaca aaccaccagc tgccatcagc ctcgccaagg ttgaactagc
481 accactctct ctgttttgga ggccagtgta cacaccacag tatctcatct ctccagacac
541 tcttaggaga ctgcatggag agtcgttccc ctacacagcc tttgataaca actgctatgc
601 cttctgttgt tgggttctgg acctaaacga ctcgtggttg tgcaggagaa tgatccagag
661 aacaactggc ttcttcagac cttaccaaga atggaacagg aaacccctcc ccaccatgga
721 tgactctaaa ttgaagaagg tagccaacat attcttgtgt gcgctatctt cgctattcac
781 taggcccatc aaagacataa taggaaaggt gagaccgctc aacatcctta acatcctggc
841 ctcatgtgat tggacttttg caggcatagt ggaatctttg atcctcttgg cagagctctt
901 tggagttttc tggacacccc cagatgtgtc tgcgatgatc gcccccttac taggtgacta
961 cgtactgcag gggcctgagg accttgcagt ggaactagta ccagtagtga tgggagggat
1021 tggtttggtg ttaggattca ccaaagagaa gatcggaaaa atgttgtcat ccgctgcttc
1081 caccttaaga gcttgtaaag accttggtgc atacgggctg gaaatcctaa aattggtcat
1141 gaaatggttc ttcccaaaga aagaggaagc aaatgagcta gctatggtga ggtccatcga
1201 ggatgcggta ctggacctcg aagcaattga gaacaaccac atgaccaccc tcctcaaaga
1261 caaagacagc ttggcaacct acatgaggac ccttgacctc gaggaggaga aagccaggaa
1321 gctttcaacc aagtctgctt cacctgacat cgtgggcaca attaacgctc ttctggcgag
1381 aatcgccgct gcacgttccc tggtgcatcg ggcgaaagag gaactctcca gcagaccaag
1441 acctgttgtt gtcatgatat caggtaggcc agggataggg aaaactcacc ttgccaggga
1501 gctggccaag aagatcgcag cttcactcac aggggaccag cgcgtgggtc tcatccctcg
1561 caatggcgtt gaccactggg atgcatataa gggagaaaga gtcgtcctat gggacgatta
1621 tggaatgagc aatcccatcc acgacgccct caggttacag gaacttgctg acacctgccc
1681 ccttacgcta aactgtgaca ggattgagaa caaaggaaag gtctttgaca gtgatgccat
1741 aatcatcacc actaatctag ccaacccagc accattggac tatgtcaact ttgaagcatg
1801 ctcgaggcgc attgacttcc tcgtgtacgc agaagcccct gaggtcgaga aagcaaagcg
1861 tgatttccca ggtcaacctg acatgtggaa gaacgcattt agctctgact tctcgcacat
1921 aaaactggcg ctggctccgc agggtggttt cgacaagaac ggaaacaccc cacacgggaa
1981 aggcgtcatg aaaaccctca ccactggttc cctcatcgcc cgagcatcag ggctactcca
2041 tgagaggttg gatgagtacg agctgcaggg cccaactccc accactttta attttgaccg
2101 caacaaggtg cttgcgttca gacaacttgc tgccgaaaac aagtatggat tgttggacac
2161 aatgagagtt ggaaaacagc tcaaggacgt taagaccatg tcagagctca aacaggcact
2221 caagaatgtc gcaatcaaga gttgtcagat agtgtatggt ggctgcacct acaggcttga
2281 gtctgatggc aagggtgatg taaaagttga cagagttcag aacgccactg tacagaccaa
2341 caatgagctt gccggcgcat tacaccatct taggtgcgcc agaatcagat attatgtcaa
2401 gtgtgttcag gaggccctgt attccatcat ccaaatcgct ggggctgcat ttgttaccac
2461 acgcattgtc aagcgcatga acatacaaga tctctggtcc aagccacagg tggagaacac
2521 agaggaaatc gctagcaagg atgggtgccc aaaaccccag gatgatgaag agtttgttgt
2581 ctcatccgat gacatcaaaa ccgagggcaa gaaagggaag aacaagtctg gccgtggcaa
2641 gaagcacaca gcattttcaa gtaaaggtct cagtgatgaa gagtacgatg agtacaaaag
2701 aattagagaa gaaagaaatg gcaaatactc catagaggaa tacctccagg acagagacag
2761 gtattatgag gaggtggcca tcgccagggc aaccgaagag gacttctgtg aagaagaaga
2821 ggctaagatc cgacagagga tcttcaggcc aacaaggaaa caacgcaaag aggagagagc
2881 ctctctcggt ttggtcacag gttctgaaat cagaaagagg aacccagacg acttcaagcc
2941 taaaggaaag ctgtgggctg atgatgacag gagtgttgac tacaatgaga gactcaactt
3001 tgaagcccca ccaagcatct ggtcgaggat agtcaacttt ggctcaggtt ggggcttttg
3061 ggtttcccct agcctgttca taacatcaac tcatgtcata ccccagggcg cacaggagtt
3121 ctttggtgta cccatcaaac aaatccagat acacaaatca ggtgaattct gccgcttgag
3181 gtttccaaag ccgatcagaa ctgacgtgac aggcatgatc ttagaagaag gtgcacccga
3241 aggaaccgtg gtcacattac tcatcaaaag accaactgga gagctcatgc ccctggcagc
3301 cagaatggga acccacgcaa ccatgaagat acaagggcgc actgttggag gtcaaatggg
3361 catgctccta acaggatcca acgccaagag tatggacctg ggcaccacac caggtgactg
3421 tggctgcccc tacatttaca agagggggaa tgactacgtg gtcattgggg tccatacagc
3481 tgccgcccgt ggaggaaaca ctgtcatttg tgccacccag gggagcgagg gagaagccac
3541 acttgaaggc ggtgatagca aggggaccta ctgcggagca ccaatcttag gtccaggaag
3601 tgccccaaaa ctcagcacca agaccaagtt ctggaggtca tccacggcac cactcccacc
3661 tggtacctat gaaccagctt acctcggtgg caaggacccc agagttaagg gtggcccttc
3721 actgcaacaa gttatgaggg atcaactgaa accattcact gagcctaggg gtaggccacc
3781 aaaaccaagt gtgctagaag ctgccaagaa aaccatcgtc aatgtcttag aacagacaat
3841 tgacccacct caaaaatggt cgtttgcgca ggcatgtgca tccctagaca agaccacttc
3901 tagcggccat ccgcaccaca tgcggaagaa tgactgctgg aacggggagt ccttcacagg
3961 aaaattggca gaccaggctt ccaaggccaa cctgatgttt gaggagggaa agaacatgac
4021 cccagtttac acgggtgcgc ttaaggacga gctggtcaag actgacaaga tttatggtaa
4081 gatcaaaaag aggcttctct ggggttcgga cctggcgacc atgattcggt gcgctcgagc
4141 attcgggggt ctgatggagg aactcaaagc acattgcgtc acactacctg ttagggtggg
4201 tatgaatatg aatgaggatg gccctatcat ctttgagaga cactccagat ataaatatca
4261 ttatgatgct gactactccc ggtgggattc aacacaacaa agagccgtgt tggcagcagc
4321 cctagaaatc atggtcaagt tttccccaga gccacacctg gcccaaaagg ttgcagaaga
4381 ccttctttct cccagcgtga tggacgtggg tgatttcaaa atatcaatca atgagggtct
4441 cccctccgga gtgccctgca cctcccaatg gaattccatc gctcactggc tcctcactct
4501 ctgtgcactc tctgaggtta caaacctgtc ccctgacatt attcaggcta actctctctt
4561 ttctttctac ggtgatgatg aaattgtgag tacagacata aaattggatc cagaaaaact
4621 gacagcaaaa ctcaaggaat acgggttgaa accgacccgc cctgacaaaa ctgaagggcc
4681 tcttgtcatt tccgaagacc tgaatggcct aaccttcctg cggaggaccg tgactcgcga
4741 cccagcaggc tggtttggaa agttggaaca gagctcaata ctcagacaaa tgtactggac
4801 taggggcccc aaccatgagg atccatctga aacaatgata ccacactccc agagacccat
4861 acaattgatg tctttgctgg gtgaggcagc actccacggc ccagcattct acagcaaaat
4921 cagtaaactg gtcattgcag agttgaagga gggtggcatg gatttttacg tgccaagaca
4981 agagccaatg ttcagatgga tgagattctc ggatctgagc acgtgggagg gcgatcgcaa
5041 tctggctccc agttttgtga atgaagatgg cgtcgagtga cgccaaccca tctgatgggt
5101 ccgcagccaa cctcgtccca gaggtcaaca atgaggttat ggctctggag cccgttgttg
5161 gtgccgccat tgcggcacct gtagcgggcc aacagaatgt aattgacccc tggattagaa
5221 ataattttgt acaagcccct ggtggagagt tcacagtatc ccctagaaac gctccaggtg
5281 aaatactatg gagcgcgccc ctgggccctg atctaaatcc ctacctatcc catttggcca
5341 gaatgtacaa tggttatgca ggtggttttg aagtgcaggt aattctcgcg gggaacgcgt
5401 tcaccgccgg gaaggtcata tttgcagcag tcccaccaaa ttttccaact gaaggcttga
5461 gccccagcca ggtcaccatg ttcccccata tagtagtgga tgttagacaa ctagaacctg
5521 tgttgattcc cttacccgat gttaggaata atttctatca ttacaatcaa tcaaatgacc
5581 ccaccattaa gttgatagca atgttatata caccacttag ggctaataat gctggggatg
5641 atgtcttcac agtttcctgc cgagttctca cgagaccatc ccccgatttt gatttcatat
5701 ttctagtgcc acccacagtt gagtcaagaa ccaaaccatt ctctgtccca gttttaactg
5761 ttgaggagat gaccaattca agattcccca tccctttgga aaaattgttc acgggtccca
5821 gcagtgcctt tgttgtccaa ccacaaaacg gcaggtgcac gactgatggc gtgctcctag
5881 gcaccaccca actgtctcct gtcaacatct gcaccttcag aggagatgtc acccatatca
5941 caggtagtca taactacaca atgaatttgg cttctcaaaa ttggagcaat tatgacccaa
6001 cagaagaaat cccagcccct ctaggaactc cagattttgt ggggaagatt cagggcgtgc
6061 tcacccaaac cacaaggaca gatggctcaa cacgcggcca caaagccaca gtgtacactg
6121 ggagcgccga ctttgctcca aaactgggta gagttcaatt tgaaactgac acaaaccatg
6181 attttgaggc taaccaaaac acaaagttca ccccagttgg tgtcatccaa gatggtggca
6241 ccacccatcg aaatgaaccc caacagtggg tgctcccaag ttactcaggc agaagtactc
6301 ccaatgtgca tctggctccc gctgtagccc ccacttttcc gggtgagcaa cttctcttct
6361 tcagatccac catgcccgga tgcagcgggt accccaacat ggatttggac tgtctgctcc
6421 cccaggaatg ggtgcagtac ttttaccaag aggcggcccc agcacaatct gatgtggctc
6481 tgctgagatt tgtgaatcca gacacaggta gggttctgtt tgagtgtaag cttcataaat
6541 caggctatgt tacagtggct cacactggtc aacatgattt ggttattccc cccaatggtt
6601 attttaggtt tgattcctgg gtcaaccagt tttacacgct tgcccccatg ggaaatggaa
6661 cggggcgtag acgtgtacta taatggctgg agctttcttt gctggattgg catctgatgt
6721 ccttggctct ggacttggtt cccttatcaa tgctggggct ggggccatta accaaaaagt
6781 tgagtttgaa aataacagaa aattgcaaca agcatccttc caatttagca gcaatctaca
6841 acaggcttcc tttcaacatg acaaagagat gctccaagca caaattgagg ccaccaaaag
6901 gctacaacag gaaatgatga aagttaagca ggcaatgctc ctggagggtg gattctctga
6961 gacagatgca gcccgcgggg caatcaacgc ccccatgaca aaagctttgg actggagcgg
7021 gacaagatac tgggctcccg atgctaggac tacaacatac aatgcaggcc gcttttccac
7081 ccctcaacca tcgggggcat cgccaggaag agctaatctc agggatgctg tccctgctcg
7141 gggtccctcc agtaagtctt ctaattcttc tactgctact tctgtgtact caaatcaaac
7201 aacttcaacg agacttggtt ctacagctgg ttctggcacc agtgtctcga gcttcccgtc
7261 atctgcaagg actaggagct gggttgagga tcaaaacagg aatttatcac ctttcatgag
7321 gggggtccac aacatatcgt ttgtcacccc accatctagc agatcctcta gccaaggcac
7381 agtctcaacc gtgcctaaag
//