Typing tool
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Typing tool
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Complete norovirus genomes
| LC066046 | GII.4 Sydney | |
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| GII.P31 |
ORF1: 4..5094
ORF2: 5075..6697
ORF3: 6697..7503
LOCUS LC066046 7545 bp RNA linear VRL 01-AUG-2015
DEFINITION Norovirus Hu/GII/JP/2015/GII.Pe_GII.4/Osaka/OSF78 POL, VP1, VP2
genes for nonstructural polyprotein, capsid protein VP1, capsid
protein VP2, complete cds.
ACCESSION LC066046
VERSION LC066046.2
KEYWORDS .
SOURCE Norovirus Hu/GII/JP/2015/GII.Pe_GII.4/Osaka/OSF78
ORGANISM Norovirus Hu/GII/JP/2015/GII.Pe_GII.4/Osaka/OSF78
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Sakon,N., Komano,J., Miyazaki,Y., Nakata,K., Yumisashi,T. and
Kumeda,Y.
TITLE Norovirus variant 2012 sydney caused food-borne outbreak in the
dormitory of high school
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7545)
AUTHORS Sakon,N., Nakata,K., Miyazaki,Y., Yumisashi,T., Kumeda,Y.,
Nakamura,S. and Motooka,D.
TITLE Direct Submission
JOURNAL Submitted (13-JUL-2015) Contact:Naomi Sakon Osaka Prefectural
Institute of Public Health, Infectious Diseases; 1-3-69 Nakamichi,
Higashinari-ku, Osaka, Osaka 537-0025, Japan URL
:http://www.iph.pref.osaka.jp/
COMMENT On Aug 1, 2015 this sequence version replaced LC066046.1.
##Genome-Assembly-Data-START##
Assembly Method :: CLC Genomics Workbench v. 8.0
Sequencing Technolog :: illumina Miseq
##Genome-Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7545
/organism="Norovirus
Hu/GII/JP/2015/GII.Pe_GII.4/Osaka/OSF78"
/mol_type="genomic RNA"
/strain="Hu/GII/JP/2015/GII.Pe_GII.4/Osaka/OSF78"
/host="Homo sapiens"
/db_xref="taxon:1682363"
/country="Japan"
/collection_date="2015-06-13"
gene 4..5094
/gene="POL"
CDS 4..5094
/gene="POL"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="BAS02082.2"
/translation="MKMVASDVAVANSNNDIAKSSSDGVFSNMAVTFKRALGARPKQP
PPKEIPPKPPRPPTPELVKKIPPPPPNGEDELVVSYSAKDGVSGLPELTTVRQPEETN
TAFSVPPLNQRESRDAKEPLTGTIIEMWDGEIYHYGLYVERGLILGVHKPPAAISLAK
VELAPLSLFWRPVYTPQYLISPDTLRRLHGESFPYTAFDNNCYAFCCWVLDLNDSWLS
RRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLKP
LNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAV
ELVPIVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKE
EANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSA
SPDIVGTINSLLARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKK
IAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLT
LNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKR
DFPGQPDMWKNAFSPDFSHIKLSLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGL
LHERLDEYELQGPALTTFNFDRNKILAFRQLAAENKYGLVDTMRVGKQLKDVKTMSDL
KQALKNIAIKKCQIVYNGGTYTLEADGKGSVKVDKVQSATVQTNNELAGALHHLRCAR
IRYYVKCVQEALYSIIQIAGAAFVTTRIAKRMNIQDLWSKPQVEDTEEMANKDGCLKP
KDDEEFVVSSDDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYS
IEEYLQDRDRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGS
EIRKRNPEDFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLF
ITSTHVIPQGAKEFFGVPIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVA
TLLIKRPTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGC
PYIYKRGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGS
APKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGK
PPRPNVLEAAKKTIINVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGE
SFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKVYGKVKKRLLWGSDLATM
IRCARAFGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQ
QRDVLAAALEIMVKFSPEPHLAQIVAEDLLSPSVMDVGDFQITISEGLPSGVPCTSQW
NSIAHWLLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYG
LKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHE
DPFETMIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMF
RWMRFSDLSTWEGDRNLAPSFVNEDGVE"
gene 5075..6697
/gene="VP1"
CDS 5075..6697
/gene="VP1"
/codon_start=1
/product="capsid protein VP1"
/protein_id="BAS02083.1"
/translation="MKMASSDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKVIFAAVPPNFPTEGLSPSQVTMFPHIVVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPVLTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHTTGSHNYTMNLASQNWSNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRTDGSTRGHKATVYTGSADFAPKLGRVQFETDTNHDFEANQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNTPNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQYFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
gene 6697..7503
/gene="VP2"
CDS 6697..7503
/gene="VP2"
/codon_start=1
/product="capsid protein VP2"
/protein_id="BAS02084.2"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKVEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKRLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWNGTRYWAPDARTTTYNAGRFSTPQPSGALPGRANLRDAVPARGSSSKSS
NSSTATSVYSNQTISTRLGSTAGSGTSVSSFPSTARTRSWVEDQSRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPREILDSWTGAFNTRRQPLFAHIRKRGESRV"
ORIGIN
1 tgaatgaaga tggtcgcttc cgatgtcgct gttgccaaca gcaacaacga catcgcaaaa
61 tcttcaagtg acggtgtgtt ttctaacatg gctgtcactt ttaagcgggc cctcggggcg
121 cggcctaaac agccgccccc gaaggaaata ccacccaaac ccccgcgacc acccacacca
181 gaattggtca aaaagatccc tcctccccca cccaacgggg aggatgaact agtggtctct
241 tacagcgcca aagatggcgt ttccggactg cctgagctca ccactgtcag acaaccggaa
301 gaaaccaaca cggcgttcag tgtcccccca ctcaaccaaa gggagagcag ggacgccaag
361 gagccactaa ctggaacaat cattgaaatg tgggatggag aaatctacca ttacggcctg
421 tacgtggaac gaggtcttat acttggtgtg cacaagccac cagcagccat cagcctcgcc
481 aaggtcgagc tggcaccgct ctctttgttc tggagacctg tatacacccc ccagtacctc
541 atctctccag acactcttag gagattacat ggagagtcat tcccctacac tgcatttgac
601 aacaattgct acgctttttg ttgttgggta ttagacctaa acgactcatg gctaagcagg
661 agaatgattc agagaacaac aggcttcttc aggccgtacc aggattggaa caggaaaccc
721 ctccccacta tggatgattc caaattgaag aaggtagcca acatattctt gtgcactttg
781 tcttcactat tcaccagacc cattaaggac ataataggga agttgaaacc tctcaacatc
841 cttaatattc tggctacatg tgattggacc ttcgcaggca tagtggaatc cttaatactc
901 ttggcagaac tctttggagt tttctggaca cccccagatg tgtctgcgat gatcgccccc
961 ttgctaggtg attatgaact gcaaggacct gaggaccttg cagtggaact ggtcccaata
1021 gtgatggggg ggataggttt ggtgctagga tttaccaaag agaaaatcgg aaagatgctg
1081 tcatccgctg catccacttt aagagcttgt aaagaccttg gtgcatacgg actggaaatc
1141 ttaaaattgg tcatgaagtg gttcttccca aagaaagagg aagcaaatga actggctatg
1201 gtgagatcca tcgaggatgc agtactagac ctcgaggcaa ttgaaaacaa ccacatgacc
1261 accctgctca aagacaaaga cagcttggca acctacatga gaacccttga ccttgaggag
1321 gagaaagcca gaaaactctc aaccaaatct gcttcacccg atattgtggg cacaatcaac
1381 tctcttctgg caagaatcgc tgctgcacgc tccctagtgc atcgggcaaa agaagagctc
1441 tccagcaggc cgagacctgt cgttgtaatg atatcgggaa gaccagggat agggaaaact
1501 caccttgcca gggagctggc caagaagatc gcggcctccc tcacagggga ccagcgtgtg
1561 ggtcttatcc cacgcaatgg tgtcgaccac tgggacgcat acaagggcga aagagttgtc
1621 ctatgggacg actatggaat gagcaacccc atccatgatg ccctcaggtt gcaggagctt
1681 gctgacactt gccccctcac gctaaattgc gacagaattg agaacaaagg aaaagtcttt
1741 gacagtgatg ccataattat caccaccaac ctggccaacc cagcaccact ggattatgtc
1801 aactttgaag cgtgctcgag acgcattgat ttcctcgtgt acgcagaagc ccctgaggtg
1861 gagaaggcaa agcgcgactt cccaggtcaa cctgacatgt ggaagaacgc tttcagtcct
1921 gacttctcac acataaaact gtcattggct ccacagggtg gttttgacaa gaacggcaac
1981 accccgcatg gaaaaggggt catgaaaacc ctcaccactg gctccctcat cgcccgagca
2041 tcagggttac tccatgagag gctagatgaa tatgaattgc aaggcccagc cctcaccact
2101 ttcaactttg accgcaacaa gatacttgct tttagacagc ttgctgctga aaacaagtat
2161 gggctggtgg acacaatgag agttggaaaa cagctcaagg atgtcaagac catgtcagac
2221 ctcaaacaag cactcaagaa catcgcgatc aagaagtgcc agatagtgta caatggtggc
2281 acctacacac ttgaggctga tggcaagggt agtgtgaaag ttgacaaagt gcaaagtgcc
2341 actgtgcaga ccaacaatga actagccggt gccctacacc acctaaggtg cgctagaatc
2401 agatactatg ttaagtgcgt ccaggaggca ctgtattcca tcatccaaat cgctggggct
2461 gcattcgtca ccacgcgcat cgctaagcgc atgaatatac aggatctctg gtccaagcca
2521 caggtggaag acacagaaga gatggccaac aaagatggtt gcctaaaacc caaagatgat
2581 gaagagtttg tcgtctcatc cgacgacatc aaaactgagg gcaagaaagg gaagaacaag
2641 tccggccgtg gcaagaagca cacagccttt tcaagtaaag ggctcagtga tgaggagtac
2701 gatgagtaca agagaatcag agaagaaagg aatggtaagt actccataga ggagtacctt
2761 caggacagag acaggtacta cgaggaggtg gccattgcca gggcaaccga agaggacttc
2821 tgtgaagaag aagaggccaa aatccggcag agaattttca gaccaacaag gaaacaacgc
2881 aaagaagaga gggcctctct cggcttggtc acaggctctg aaatcaggaa gagaaaccca
2941 gaagacttca aacccaaggg aaagctgtgg gctgatgatg acagaagtgt tgactacaat
3001 gagaaactca actttgaggc cccaccaagc atctggtcgc ggatagtcaa ctttggttca
3061 ggctggggct tctgggtctc ccccagtctg tttataacat caacccatgt cataccccaa
3121 ggtgcaaaag agttcttcgg agtccctatc aagcaaatcc agatacacaa gtcaggtgaa
3181 ttctgccggt tgagattccc aaagccaatc agaaccgatg tgacgggcat gattctagaa
3241 gaaggtgcgc ccgaggggac cgtggccaca ctgctcatca agagaccaac tggagagctc
3301 atgcctctgg cagccagaat ggggacccat gcaaccatga aaattcaggg gcgcacagtt
3361 ggagggcaaa tgggtatgct cctgacagga tccaacgcca agagtatgga cctaggcaca
3421 acaccaggcg actgcggctg cccctacatc tacaagaggg ggaatgacta cgtggtcata
3481 ggagtccata cggccgctgc ccgtggagga aacactgtca tatgtgccac ccagggaagt
3541 gagggagagg ccacacttga aggaggtgac agtaaaggga catactgtgg cgcaccaatc
3601 ttgggcccag ggagcgctcc gaagctcagc accaagacta agttttggag atcatccaca
3661 acaccactcc cacctggcac ctacgaacca gcctacctcg gtggcaaaga ccctagagtc
3721 aaaggtggcc cttcattgca acaagttatg agggaccagc tgaagccatt cacagaaccc
3781 agaggcaaac caccaagacc aaatgtgttg gaagctgcca agaaaaccat catcaatgtc
3841 cttgagcaaa caattgatcc accccaaaaa tggtcatttg cgcaagcttg cgcatccctt
3901 gacaaaacca cctccagcgg ccacccgcac catatgcgga aaaacgactg ttggaatggg
3961 gagtccttca caggaaaatt ggctgatcaa gcctccaagg ccaacctaat gtttgaagag
4021 ggaaagaaca tgactccagt ctacacaggt gcacttaaag atgagttggt aaagaccgat
4081 aaagtttatg gtaaggtcaa gaagaggctt ctgtggggtt cagatctggc gaccatgata
4141 cggtgcgccc gagcttttgg aggcctcatg gatgaactca aggcacactg tgtcacactc
4201 cctgtcagag ttggtatgaa catgaatgag gatggcccca tcatcttcga gaagcactcc
4261 agatatagat atcactatga tgctgactat tcccggtggg actcaacaca acaaagggat
4321 gtgctagcag cagcactaga aatcatggtt aagttctctc cagaaccaca cctggcccag
4381 atagttgcag aagacctcct ctcccctagc gtgatggatg taggtgactt tcaaataaca
4441 ataagtgagg gtctcccctc tggggtgcct tgtacctccc agtggaattc catcgcccac
4501 tggctcctca ctctgtgtgc actctctgaa gtcacggacc tgtcccctga tatcattcag
4561 gccaactccc ttttctcctt ctatggtgat gatgagattg taagcacaga cataaagttg
4621 gacccagaga agctgacagc aaaactcaag gagtacgggc tgaaaccaac ccgccccgac
4681 aaaactgaag gaccccttgt tatctctgaa gacctggatg gtctgacatt cctccggaga
4741 actgtgaccc gtgatccagc tggctggttt ggaaaattgg aacaaagttc aattcttagg
4801 caaatgtact ggaccagggg tcccaaccat gaagatccat ttgaaacaat gataccacac
4861 tcccaaagac ccatacaatt gatgtccttg ctgggcgagg ctgcactcca cggcccggca
4921 ttctacagca aaattagcaa attagtcatt gcagagttga aggaaggtgg catggatttt
4981 tacgtaccca gacaagagcc aatgttcaga tggatgagat tctcagatct gagcacgtgg
5041 gagggcgatc gcaatctggc tcccagtttt gtgaatgaag atggcgtcga gtgacgccaa
5101 cccatctgat gggtccgcag ccaacctcgt cccagaggtc aacaatgagg ttatggctct
5161 ggagcccgtt gtcggtgccg ctattgcggc acctgtagcg ggccaacaaa atgtaattga
5221 cccctggatt agaaataatt ttgtacaagc ccctggtgga gagtttacag tatcccctag
5281 aaacgctcca ggtgaaatac tatggagcgc gcccttgggc cctgatctaa atccctacct
5341 atctcatttg gccagaatgt acaatggtta tgcaggtggt tttgaagtgc aggtaattct
5401 cgcggggaac gcgttcaccg ccgggaaggt catatttgca gcagtcccac caaattttcc
5461 aactgaaggc ttgagcccca gccaggtcac tatgttcccc catatagtag tagatgttag
5521 gcaactagaa cctgtgttga ttcccttacc cgatgttagg aataatttct atcattacaa
5581 tcaatcaaat gaccccacca ttaagttgat agcaatgttg tatacaccac ttagggctaa
5641 taatgctggg gatgatgtct tcacagtttc ttgccgagtt ctcacgagac catcccccga
5701 ttttgacttc atatttctag tgccacccac agttgagtca agaactaaac cattctctgt
5761 cccagtttta actgttgagg agatgaccaa ttcaagattc cccattcctt tggaaaagtt
5821 gttcacgggt cccagcagtg cctttgttgt ccaaccacaa aacggtaggt gcacgactga
5881 tggcgtgctc ctaggcacca cccaactgtc tcctgtcaac atctgcacct tcagaggaga
5941 tgtcacccat accacaggta gtcataacta cacaatgaat ttggcttctc aaaattggag
6001 caattacgac ccaacagaag aaatcccagc ccctctagga actccagact ttgtggggaa
6061 gattcaaggc gtgcttaccc aaaccacaag gacagatggc tcaacacgcg gccacaaagc
6121 cacagtttat actgggagcg ccgactttgc tccaaaactg ggtagagttc aatttgaaac
6181 tgacacaaac catgattttg aagctaacca aaacacaaag ttcaccccag ttggtgtcat
6241 ccaagatggt ggcaccaccc accgaaatga accccaacag tgggtgctcc caagttactc
6301 aggcagaaat actcctaatg tgcatctggc ccccgctgta gcccccactt ttccgggtga
6361 gcaacttctc ttcttcagat ccaccatgcc cggatgcagc gggtacccca acatggattt
6421 ggactgtctg ctcccccagg aatgggtgca gtacttctac caagaggcag ccccagcaca
6481 atctgatgtg gctctgctaa ggtttgtgaa tccagacaca ggtagggttt tgtttgaatg
6541 taagcttcat aaatcaggtt atgtcacagt ggctcacact ggccaacatg atttggttat
6601 cccccccaat ggttatttta ggtttgattc ctgggtcaac cagttttaca cgcttgcccc
6661 catgggaaat ggaacggggc gtagacgtgc actataatgg ctggagcttt ctttgctgga
6721 ttggcatctg atgtccttgg ctctggactt ggttccctta tcaatgctgg ggctggggcc
6781 atcaaccaaa aagttgagtt tgaaaacaac agaaaattgc aacaagcatc cttccaattt
6841 agcagcaatc tacaacaggc ttcctttcaa catgacaaag agatgctcca agcacaaatt
6901 gaggccacca aaaggttaca acaggaaatg atgaaagtta agcaggcaat gctcctagag
6961 ggtgggttct ctgagacaga tgcagcccgc ggggcaatca acgcccccat gacaaaagct
7021 ttggactgga acgggacaag gtactgggct cctgatgcta ggactacaac atacaatgca
7081 ggccgctttt ccacccctca accatcgggg gcgctgccag gaagagctaa tcttagggat
7141 gctgtccctg ctcggggttc ctctagtaag tcttctaatt cttctactgc tacttctgtg
7201 tactcaaatc aaactatttc aacgagactt ggttctacag ctggttctgg taccagtgtc
7261 tcgagcttcc cgtcaactgc aaggactagg agctgggttg aggatcaaag taggaatttg
7321 tcacctttca tgaggggggc ccacaacata tcgtttgtca ccccaccatc tagcagatcc
7381 tctagccaag gcacagtctc aaccgtgcct agagagattt tggactcctg gactggcgct
7441 ttcaacacgc gcaggcagcc actcttcgct cacattcgta agcgagggga gtcacgggtg
7501 taatgtgaaa agacaaaatt gattatcttt cttttcttta gtgtc
//