Typing tool
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Typing tool
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Complete norovirus genomes
| LC421227 | GII.4 Sydney | |
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| GII.P12 |
ORF1: 1..5049
ORF2: 5036..6652
ORF3: 6652..7386
LOCUS LC421227 7386 bp RNA linear VRL 28-SEP-2018
DEFINITION Norovirus GII Hu/GII.P12-GII.4sydney_2012/330077/Tokyo/2017/ POL,
VP1, VP2 genes for nonstructural polyprotein, capsid protein VP1,
small basic protein VP2, partial and complete cds.
ACCESSION LC421227
VERSION LC421227.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
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JOURNAL Unpublished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 7386)
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..7386
/organism="Norovirus GII"
/mol_type="genomic RNA"
/strain="Hu/GII.P12-GII.4sydney_2012/330077/Tokyo/2017/"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Japan:Tokyo"
/collection_date="2017-12"
/note="genotype: GII.P12_GII.4"
gene <1..5049
/gene="POL"
CDS <1..5049
/gene="POL"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BBG06454.1"
/translation="NDNAKSSSDGVLSSMAVTFKRALGARQKQPPPREIPQRPPRPPT
PELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVWQPDETNTAFSVPPLNQRENR
DAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELAPLSLFWRPVY
TPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLCRRMIQRTTGFFRPY
QEWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKVRPLNILNILASCDWTF
AGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYVLQGPEDLAVELVPVVMGGIGLVL
GFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDA
VLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLAR
IAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIAASLTGDQRVGLI
PRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFD
SDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFS
SDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQGPT
PTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTMSELKQALKNVAIKSCQI
VYGGCTYRLESDGKGDVKVDRVQNATVQTNNELAGALHHLRCARIRYYVKCVQEALYS
IIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEEIASKDGCPKPQDDEEFVVSSDDIK
TEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDRYYEE
VAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKPKG
KLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAQEF
FGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPTGELMPL
AARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIG
VHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSS
TAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKPSVLEAAKKTI
VNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKAN
LMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMEEL
KAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAALEIMVK
FSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLLTLCALS
EVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLV
ISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSETMIPHSQRPI
QLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGD
RNLAPSFVNEDGVE"
gene 5036..6652
/gene="VP1"
CDS 5036..6652
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BBG06455.1"
/translation="MASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQQN
VIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGGFE
VQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPDVR
NNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPPTV
ESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTTQL
SPVNICTFRGDVTHITGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVLTQ
TTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDGGT
THRNEPQQWVLPSYSGRSTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLDCL
LPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLVIP
PNGYFRFDSWVNQFYTLAPMGNGTGRRRVL"
gene 6652..>7386
/gene="VP2"
CDS 6652..>7386
/gene="VP2"
/codon_start=1
/product="small basic protein VP2"
/protein_id="BBG06456.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGASPGRANLRDAVPARGPSSKSS
NSSTATSVYSNQTTSTRLGSTAGSGTSVSSFPSSARTRSWVEDQNRNLSPFMRGVHNI
SFVTPPSSRSSSQGTVSTVPKEILDSW"
ORIGIN
1 aacgacaacg caaaatcttc aagtgacgga gtgctttcta gcatggctgt cacttttaaa
61 cgagccctcg gggcgcggca aaaacagcct cccccgaggg aaataccaca aaggcctcca
121 cggccaccca ccccagaact ggtcaaaaag atccctcctc ccccacccaa tggggaggat
181 gaactagtgg tctcttatag cgccaaagat ggcgtttctg gtttgcctga acttaccact
241 gtctggcaac cggatgagac caacacggcg ttcagtgttc cccctctcaa ccagagggag
301 aacagggacg ccaaggagcc gctgaccgga acaatcctgg aaatgtggga cggggagatc
361 tatcattatg gtctgtatgt ggagcgaggc cttgtacttg gtgtgcacaa accaccagct
421 gccatcagcc tcgccaaggt tgaactagca ccactctctc tgttttggag gccagtgtac
481 acaccacagt atctcatctc tccagacact cttaggagac tgcatggaga gtcgttcccc
541 tacacagcct ttgataacaa ctgctatgcc ttctgttgtt gggttctgga cctaaacgac
601 tcgtggttgt gcaggagaat gatccagaga acaactggct tcttcagacc ttaccaagaa
661 tggaacagga aacccctccc caccatggat gactctaaat tgaagaaggt agccaacata
721 ttcttgtgtg cgctatcttc gctattcact aggcccatca aagacataat aggaaaggtg
781 agaccgctca acatccttaa catcctggcc tcatgtgatt ggacttttgc aggcatagtg
841 gaatctttga tcctcttggc agagctcttt ggagttttct ggacaccccc agatgtgtct
901 gcgatgatcg cccccttact aggtgactac gtactgcagg ggcctgagga ccttgcagtg
961 gaactagtac cagtagtgat gggagggatt ggtttggtgt taggattcac caaagagaag
1021 atcggaaaaa tgttgtcatc cgctgcttcc accttaagag cttgtaaaga ccttggtgca
1081 tacgggctgg aaatcctaaa attggtcatg aaatggttct tcccaaagaa agaggaagca
1141 aatgagctag ctatggtgag gtccatcgag gatgcggtac tggacctcga agcaattgag
1201 aacaaccaca tgaccaccct cctcaaagac aaagacagct tggcaaccta catgaggacc
1261 cttgacctcg aggaggagaa agccaggaag ctttcaacca agtctgcttc acctgacatc
1321 gtgggcacaa ttaacgctct tctggcgaga atcgccgctg cacgttccct ggtgcatcgg
1381 gcgaaagagg aactctccag cagaccaaga cctgttgttg tcatgatatc aggtaggcca
1441 gggataggga aaactcacct tgccagggag ctggccaaga agatcgcagc ttcactcaca
1501 ggggaccagc gcgtgggtct catccctcgc aatggcgttg accactggga tgcatataag
1561 ggagaaagag tcgtcctatg ggacgattat ggaatgagca atcccatcca cgacgccctc
1621 aggttacagg aacttgctga cacctgcccc cttacgctaa actgtgacag gattgagaac
1681 aaaggaaagg tctttgacag tgatgccata atcatcacca ctaatctagc caacccagca
1741 ccattggact atgtcaactt tgaagcatgc tcgaggcgca ttgacttcct cgtgtacgca
1801 gaagcccctg aggtcgagaa agcaaagcgt gatttcccag gtcaacctga catgtggaag
1861 aacgcattta gctctgactt ctcgcacata aaactggcgc tggctccgca gggtggtttc
1921 gacaagaacg gaaacacccc acacgggaaa ggcgtcatga aaaccctcac cactggttcc
1981 ctcatcgccc gagcatcagg gctactccat gagaggttgg atgagtacga gctgcagggc
2041 ccaactccca ccacttttaa ttttgaccgc aacaaggtgc ttgcgttcag acaacttgct
2101 gccgaaaaca agtatggatt gttggacaca atgagagttg gaaaacagct caaggacgtt
2161 aagaccatgt cagagctcaa acaggcactc aagaatgtcg caatcaagag ttgtcagata
2221 gtgtatggtg gctgcaccta caggcttgag tctgatggca agggtgatgt aaaagttgac
2281 agagttcaga acgccactgt acagaccaac aatgagcttg ccggcgcatt acaccatctt
2341 aggtgcgcca gaatcagata ttatgtcaag tgtgttcagg aggccctgta ttccatcatc
2401 caaatcgctg gggctgcatt tgttaccaca cgcattgtca agcgcatgaa catacaagat
2461 ctctggtcca agccacaggt ggagaacaca gaggaaatcg ctagcaagga tgggtgccca
2521 aaaccccagg atgatgaaga gtttgttgtc tcatccgatg acatcaaaac cgagggcaag
2581 aaagggaaga acaagtctgg ccgtggcaag aagcacacag cattttcaag taaaggtctc
2641 agtgatgaag agtacgatga gtacaaaaga attagagaag aaagaaatgg caaatactcc
2701 atagaggaat acctccagga cagagacagg tattatgagg aggtggccat cgccagggca
2761 accgaagagg acttctgtga agaagaagag gctaagatcc gacagaggat cttcaggcca
2821 acaaggaaac aacgcaaaga ggagagagcc tctctcggtt tggtcacagg ttctgaaatc
2881 agaaagagga acccagacga cttcaagcct aaaggaaagc tgtgggctga tgatgacagg
2941 agtgttgact acaatgagag actcaacttt gaagccccac caagcatctg gtcgaggata
3001 gtcaactttg gctcaggttg gggcttttgg gtttccccta gcctgttcat aacatcaact
3061 catgtcatac cccagggcgc acaggagttc tttggtgtac ccatcaaaca aatccagata
3121 cacaaatcag gtgaattctg ccgcttgagg tttccaaagc cgatcagaac tgacgtgaca
3181 ggcatgatct tagaagaagg tgcacccgaa ggaaccgtgg tcacattact catcaaaaga
3241 ccaactggag agctcatgcc cctggcagcc agaatgggaa cccacgcaac catgaagata
3301 caagggcgca ctgttggagg tcaaatgggc atgctcctaa caggatccaa cgccaagagt
3361 atggacctgg gcaccacacc aggtgactgt ggctgcccct acatttacaa gagggggaat
3421 gactacgtgg tcattggggt ccatacagct gccgcccgtg gaggaaacac tgtcatttgt
3481 gccacccagg ggagcgaggg agaagccaca cttgaaggcg gtgatagcaa ggggacctac
3541 tgcggagcac caatcttagg tccaggaagt gccccaaaac tcagcaccaa gaccaagttc
3601 tggaggtcat ccacggcacc actcccacct ggtacctatg aaccagctta cctcggtggc
3661 aaggacccca gagttaaggg tggcccttca ctgcaacaag ttatgaggga tcaactgaaa
3721 ccattcactg agcctagggg taggccacca aaaccaagtg tgctagaagc tgccaagaaa
3781 accatcgtca atgtcttaga acagacaatt gacccacctc aaaaatggtc gtttgcgcag
3841 gcatgtgcat ccctagacaa gaccacttct agcggccatc cgcaccacat gcggaagaat
3901 gactgctgga acggggagtc cttcacagga aaattggcag accaggcttc caaggccaac
3961 ctgatgtttg aggagggaaa gaacatgacc ccagtttaca cgggtgcgct taaggacgag
4021 ctggtcaaga ctgacaagat ttatggtaag atcaaaaaga ggcttctctg gggttcggac
4081 ctggcgacca tgattcggtg cgctcgagca ttcgggggtc tgatggagga actcaaagca
4141 cattgcgtca cactacctgt tagggtgggt atgaatatga atgaggatgg ccctatcatc
4201 tttgagagac actccagata taaatatcat tatgatgctg actactcccg gtgggattca
4261 acacaacaaa gagccgtgtt ggcagcagcc ctagaaatca tggtcaagtt ttccccagag
4321 ccacacctgg cccaaaaggt tgcagaagac cttctttctc ccagcgtgat ggacgtgggt
4381 gatttcaaaa tatcaatcaa tgagggtctc ccctccggag tgccctgcac ctcccaatgg
4441 aattccatcg ctcactggct cctcactctc tgtgcactct ctgaggttac aaacctgtcc
4501 cctgacatta ttcaggctaa ctctctcttt tctttctacg gtgatgatga aattgtgagt
4561 acagacataa aattggatcc agaaaaactg acagcaaaac tcaaggaata cgggttgaaa
4621 ccgacccgcc ctgacaaaac tgaagggcct cttgtcattt ccgaagacct gaatggccta
4681 accttcctgc ggaggaccgt gactcgcgac ccagcaggct ggtttggaaa gttggaacag
4741 agctcaatac tcagacaaat gtactggact aggggcccca accatgagga tccatctgaa
4801 acaatgatac cacactccca gagacccata caattgatgt ctttgctggg tgaggcagca
4861 ctccacggcc cagcattcta cagcaaaatc agtaaactgg tcattgcaga gttgaaggag
4921 ggtggcatgg atttttacgt gccaagacaa gagccaatgt tcagatggat gagattctcg
4981 gatctgagca cgtgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc
5041 gtcgagtgac gccaacccat ctgatgggtc cgcagccaac ctcgtcccag aggtcaacaa
5101 tgaggttatg gctctggagc ccgttgttgg tgccgccatt gcggcacctg tagcgggcca
5161 acagaatgta attgacccct ggattagaaa taattttgta caagcccctg gtggagagtt
5221 cacagtatcc cctagaaacg ctccaggtga aatactatgg agcgcgcccc tgggccctga
5281 tctaaatccc tacctatccc atttggccag aatgtacaat ggttatgcag gtggttttga
5341 agtgcaggta attctcgcgg ggaacgcgtt caccgccggg aaggtcatat ttgcagcagt
5401 cccaccaaat tttccaactg aaggcttgag ccccagccag gtcaccatgt tcccccatat
5461 agtagtggat gttagacaac tagaacctgt gttgattccc ttacccgatg ttaggaataa
5521 tttctatcat tacaatcaat caaatgaccc caccattaag ttgatagcaa tgttatatac
5581 accacttagg gctaataatg ctggggatga tgtcttcaca gtttcctgcc gagttctcac
5641 gagaccatcc cccgattttg atttcatatt tctagtgcca cccacagttg agtcaagaac
5701 caaaccattc tctgtcccag ttttaactgt tgaggagatg accaattcaa gattccccat
5761 ccctttggaa aaattgttca cgggtcccag cagtgccttt gttgtccaac cacaaaacgg
5821 caggtgcacg actgatggcg tgctcctagg caccacccaa ctgtctcctg tcaacatctg
5881 caccttcaga ggagatgtca cccatatcac aggtagtcat aactacacaa tgaatttggc
5941 ttctcaaaat tggagcaatt atgacccaac agaagaaatc ccagcccctc taggaactcc
6001 agattttgtg gggaagattc agggcgtgct cacccaaacc acaaggacag atggctcaac
6061 acgcggccac aaagccacag tgtacactgg gagcgccgac tttgctccaa aactgggtag
6121 agttcaattt gaaactgaca caaaccatga ttttgaggct aaccaaaaca caaagttcac
6181 cccagttggt gtcatccaag atggtggcac cacccatcga aatgaacccc aacagtgggt
6241 gctcccaagt tactcaggca gaagtactcc caatgtgcat ctggctcccg ctgtagcccc
6301 cacttttccg ggtgagcaac ttctcttctt cagatccacc atgcccggat gcagcgggta
6361 ccccaacatg gatttggact gtctgctccc ccaggaatgg gtgcagtact tttaccaaga
6421 ggcggcccca gcacaatctg atgtggctct gctgagattt gtgaatccag acacaggtag
6481 ggttctgttt gagtgtaagc ttcataaatc aggctatgtt acagtggctc acactggtca
6541 acatgatttg gttattcccc ccaatggtta ttttaggttt gattcctggg tcaaccagtt
6601 ttacacgctt gcccccatgg gaaatggaac ggggcgtaga cgtgtactat aatggctgga
6661 gctttctttg ctggattggc atctgatgtc cttggctctg gacttggttc ccttatcaat
6721 gctggggctg gggccattaa ccaaaaagtt gagtttgaaa ataacagaaa attgcaacaa
6781 gcatccttcc aatttagcag caatctacaa caggcttcct ttcaacatga caaagagatg
6841 ctccaagcac aaattgaggc caccaaaagg ctacaacagg aaatgatgaa agttaagcag
6901 gcaatgctcc tggagggtgg attctctgag acagatgcag cccgcggggc aatcaacgcc
6961 cccatgacaa aagctttgga ctggagcggg acaagatact gggctcccga tgctaggact
7021 acaacataca atgcaggccg cttttccacc cctcaaccat cgggggcatc gccaggaaga
7081 gctaatctca gggatgctgt ccctgctcgg ggtccctcca gtaagtcttc taattcttct
7141 actgctactt ctgtgtactc aaatcaaaca acttcaacga gacttggttc tacagctggt
7201 tctggcacca gtgtctcgag cttcccgtca tctgcaagga ctaggagctg ggttgaggat
7261 caaaacagga atttatcacc tttcatgagg ggggtccaca acatatcgtt tgtcacccca
7321 ccatctagca gatcctctag ccaaggcaca gtctcaaccg tgcctaaaga gattttggac
7381 tcctgg
//