Typing tool
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Typing tool
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Complete norovirus genomes
| AB541348 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..4992
ORF2: 4973..6595
ORF3: 6595..7401
LOCUS AB541348 7401 bp RNA linear VRL 25-JUL-2016
DEFINITION Norovirus Hu/GII-4/Shimane2/2008/JP genomic RNA, nearly complete
genome.
ACCESSION AB541348
VERSION AB541348.1
KEYWORDS .
SOURCE Norovirus Hu/GII-4/Shimane2/2008/JP
ORGANISM Norovirus Hu/GII-4/Shimane2/2008/JP
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Motomura,K., Yokoyama,M., Ode,H., Nakamura,H., Mori,H., Kanda,T.,
Oka,T., Katayama,K., Noda,M., Tanaka,T., Takeda,N. and Sato,H.
CONSRTM Norovirus Surveillance Group of Japan
TITLE Genome Recombination for Independent and Concurrent Evolution of
Non-structural and Capsid Proteins of Norovirus GII/4 in Humans
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7401)
AUTHORS Motomura,K. and Sato,H.
TITLE Direct Submission
JOURNAL Submitted (12-JAN-2010) Contact:Kazushi Motomura National Institute
of Infectious Diseases, Center for Pathogen Genomics; Gakuen 4-7-1,
Musashi-Murayama, Tokyo 208-0011, Japan
COMMENT These sequences were determined at our laboratory.
FEATURES Location/Qualifiers
source 1..7401
/organism="Norovirus Hu/GII-4/Shimane2/2008/JP"
/mol_type="genomic RNA"
/strain="Hu/GII-4/Shimane2/2008/JP"
/isolation_source="stool"
/db_xref="taxon:707531"
/country="Japan:Shimane"
CDS <1..4992
/note="contains N-terminal NTPase 3A VPg 3Cpro and 3Dpol"
/codon_start=1
/product="polyprotein"
/protein_id="BAJ13974.1"
/translation="KRALGARPKQPPPRETPQKPPRPPTPELVKKIPPPPPNGEDEVV
VSYSAKDGVSGLPELSTVRQPEETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIY
HYGLYVERGLVLGVHKPPAAISLAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETF
PYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKV
ANIFLCALSSLFTRPIKDIIGKLRPLNIINILASCDWTFAGIVESLILLAELFGVFWT
PPDVSAMIAPLLGDFELQGPEDLVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLR
ACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDK
DSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALLARIAAARSLVHRAKEELSSRP
RPVVLMISGRPGIGKTHLAREVAKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLW
DDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYV
NFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKN
GNTPHGKGVMKTLTTGSLIARASGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAA
ENKYGLMDTMKVGRQLKDVKTMPELKQALKNISIKKCQIVYSGCTYTLESDGKGNVKV
DRVQSTSVQTNNELAGALHHLRCARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRVN
IQDLWSKPQVENTEEATSKDGCPKPKDDEKFVISSDDIKTEGKKGKNKTGRGKKHTAF
SSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKI
RQRIFRPTRKQRKEERASLGLVTGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFE
APPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAKEFFGVPIKQIQVHKSGEFCRL
RFPKPIRTDVTGMILEEGAPEGTVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGG
QMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGG
EGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWRSSTTPLPPGTYEPAYLGGKDP
RVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQA
CASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASKANLMFEEGKNMTPVYTGALKD
ELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLMDELKAHCVTLPVRVGMNMNEDG
PIIFEKHSRYRYHYDADYSRWDSTQQRAVLEAALEIMVKFSSEPHLAQVVAEDLLSPS
VVDVGDFTISINEGLPSGVPCTSQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFY
GDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDP
AGWFGKLEQSSILRQMYWTRGPNHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSK
ISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 4973..6595
/codon_start=1
/product="VP1"
/protein_id="BAJ13975.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFATDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6595..7401
/codon_start=1
/product="VP2"
/protein_id="BAJ13976.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALLGRINPRTPTPARGSPSISS
NASTAASIYSNQTVSTRLGSTAGSGTNVSSLPPTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKDVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 aaacgagccc tcggggcgcg gcctaaacag ccccccccga gggaaacacc acaaaaaccc
61 ccacgaccac ctactccaga actggtcaaa aagatccctc ctcccccgcc caacggagag
121 gatgaagtag tggtttctta tagtgccaaa gatggcgttt ccggtttgcc tgagctttcc
181 accgtcaggc aaccggaaga aaccaatacg gccttcagtg tccctccact caatcagagg
241 gagaataggg atgctaagga accactgact ggaacaattc tggaaatgtg ggatggggaa
301 atctaccatt atggcctgta tgttgagcga ggtcttgtgc tgggtgtaca caaaccacca
361 gctgccatca gcctcgccaa ggtcgaattg acaccactct ccttgttctg gagacctgtg
421 tacactcctc agtacctcat ttctccagac actctcaaga aattacacgg agaaacattt
481 ccctacacag cctttgacaa caattgctat gccttttgtt gctgggtcct ggatctaaac
541 gactcgtggc tgagtaggag aatgatccag agaacaactg gcttcttcag accctaccaa
601 gattggaata ggaaacccct ccccactatg gatgattcca aattaaagaa ggtagctaac
661 atattcctgt gcgccctgtc ttcgctattc accaggccta taaaagacat aataggaaag
721 ttaaggcctc tcaacatcat caacatcctg gcttcatgtg attggacttt cgcaggcata
781 gtggagtcct tgatactctt ggcagagctc tttggagtct tctggacacc cccagatgtg
841 tctgcgatga ttgccccctt actcggtgat ttcgagttac aaggacctga ggaccttgta
901 gtggagctcg tccctgtggt aatggggggg attggtttgg tgctaggatt caccaaggag
961 aagattggaa aaatgttgtc atctgctgca tccaccttga gagcttgtaa agaccttggt
1021 gcatatgggc tagagatcct aaagttagtc atgaagtggt tcttcccgaa gaaagaggaa
1081 gcgaatgaac tggctatggt gagatccatc gaggatgcag tactggacct tgaggcaatt
1141 gaaaacaacc atatgaccac cttgctcaaa gacaaggata gcctggcaac ctacatgaga
1201 acccttgacc tcgaggaaga gaaagccaga aaactctcaa ccaagtctgc ttcacctgac
1261 atcgtgggca caatcaacgc acttctggcg agaatcgccg ctgcacgctc cctggtgcac
1321 cgagcgaaag aggagctttc cagcagacca agacctgtag tcttgatgat atcaggcagg
1381 ccagggatag ggaagaccca ccttgctagg gaagtggcca agaggatcgc agcctccctc
1441 acaggagacc agcgtgtagg cctcatccca cgcaatggcg tcgatcactg ggatgcgtac
1501 aagggggaga gggtcgtcct atgggacgac tatggaatga gcaatcccat ccacgacgcc
1561 ctcaggttgc aagaactcgc tgacacttgc cccctcactc taaattgtga caggattgag
1621 aataaaggaa aggtctttga cagcgatgtc atcattatca ctactaattt ggccaaccca
1681 gcaccactgg actatgtcaa ctttgaggca tgctcgaggc gcatcgattt cctcgtgtat
1741 gcagaagccc ccgaggtcga aaaggcgaag cgcgacttcc cgggccaacc tgacatgtgg
1801 aaaaacgctt ttagttctga tttctcacac ataaaattgg cactggctcc acaaggtggc
1861 tttgataaga acgggaacac cccacacggg aagggcgtca tgaaaactct caccactggc
1921 tccctcattg cccgggcatc agggctgctc catgagagat tggatgagtt tgaactacag
1981 ggcccagctc tcaccacctt caactttgac cgcaacaaag tgcttgcctt caggcagctt
2041 gctgctgaaa acaaatatgg gttgatggac acaatgaaag ttgggaggca gctcaaggat
2101 gtcaaaacca tgccagaact taaacaagca ctcaagaata tctcaatcaa gaagtgccag
2161 attgtgtaca gtggttgcac ctacacactt gagtctgatg gcaagggcaa tgtgaaagtt
2221 gacagagttc agagtacctc cgttcagacc aacaacgagc tggctggcgc cctgcaccat
2281 ctaaggtgcg ccagaattag gtattatgtt aagtgtgttc aggaggccct gtattctatc
2341 atccagattg ctggggctgc atttgtcacc acgcgcatca tcaagcgtgt gaacattcaa
2401 gacttatggt ccaagccaca agtggaaaac acagaggagg ctaccagcaa ggacgggtgc
2461 ccaaaaccca aagatgatga gaagttcgtc atttcatctg acgacattaa aactgagggt
2521 aagaaaggga agaacaagac tggtcgtggc aagaagcaca cagccttctc aagtaaaggt
2581 ctcagtgatg aagagtacga tgagtacaag agaattagag aggaaagaaa tggcaagtac
2641 tccatagaag agtaccttca ggacagggac aaatactatg aggaggtggc cattgccagg
2701 gcgaccgagg aagacttctg tgaagaggag gaggccaaga tccggcaaag gatcttcaga
2761 ccaacaagga aacaacgcaa ggaagaaaga gcttctctcg gtttagtcac aggttctgaa
2821 attaggaaaa gaaatccaga agacttcaag cccaagggga aactatgggc tgacgatgac
2881 agaagtgtag actacaatga aaaactcagt tttgaggctc caccaagcat ctggtcaagg
2941 atagtcaact ttggctcagg ttggggcttc tgggtctccc ccagcctgtt cataacatca
3001 acccacgtca taccccaggg cgcaaaggag ttctttggag tccccatcaa acaaattcag
3061 gtgcacaagt caggcgaatt ctgtcgcttg aggttcccaa aaccaatcag gactgatgtg
3121 actggcatga tcttggaaga aggtgcgccc gaaggtaccg tggtcacact actcatcaaa
3181 aggtctactg gagaactcat gcccctagca gctagaatgg ggacccacgc aaccatgaaa
3241 attcaagggc gcactgttgg aggtcagatg ggcatgcttc tgacaggatc caacgccaaa
3301 agcatggatc taggcaccac accaggtgat tgcggctgtc cctacatcta caagagagga
3361 aatgactatg tggtcattgg agtccacacg gctgccgctc gtgggggaaa cactgtcata
3421 tgtgccaccc aggggggtga gggggaagct acacttgaag gtggtgacag taagggaaca
3481 tactgtggtg caccaattct aggcccaggg agtgccccaa aactcagcac caaaaccaaa
3541 ttctggagat catccacaac accactccca cctggcacct atgaaccagc ctaccttggt
3601 ggcaaagacc ccagagttaa gggtggcccc tcgttgcagc aagtcatgag ggaccagcta
3661 aaaccattta cggagcctag gggtaagcca ccaaaaccaa gtgtgttaga agctgccaag
3721 aaaaccatca tcaatgtcct tgaacagaca attgacccac ctgagaagtg gtcgttcgca
3781 caagcttgcg cgtctcttga taagaccact tctagcggcc atccgcacca catgcggaaa
3841 aacgactgct ggaacgggga gtccttcaca ggcaagctgg cagaccaggc ttccaaggcc
3901 aacctgatgt ttgaagaagg gaagaacatg accccagtct acacaggtgc acttaaggat
3961 gaattagtca aaactgacaa aatttatggt aagatcaaaa agaggcttct ctggggctcg
4021 gatttggcaa ccatgatccg gtgtgctcga gcattcggag gtctgatgga tgaactcaaa
4081 gcacactgtg tcacgcttcc tgtcagagtt ggtatgaata tgaatgagga tggccccatc
4141 atcttcgaga agcattccag gtacagatac cactatgatg ctgattactc tcggtgggat
4201 tcaacacaac agagagccgt gctggaagct gctctagaaa tcatggttaa attctcctca
4261 gaaccacatt tggctcaggt agtagcagaa gaccttcttt ctcctagcgt agtggatgtg
4321 ggtgacttca caatatcaat caacgagggt cttccctctg gggtgccctg cacctcccaa
4381 tggaactcca tcgcccactg gcttctcact ctctgtgcgc tctccgaagt cacaaatttg
4441 tctccagaca tcatacaggc caattctctc ttctccttct atggtgatga tgaaattgtt
4501 agtacagaca taaaattaga cccagagaag ttgacagcaa agcttaagga atatgggttg
4561 aaaccaaccc gccctgacaa aactgaaggg cctcttgtta tttctgaaga cttagacggt
4621 ttgactttcc tgcggagaac tgtgacccgc gacccagctg gttggtttgg aaaactggag
4681 cagagctcaa tactcaggca aatgtactgg actaggggcc ccaaccatga agacccatct
4741 gaatcaatga tcccacactc tcaaagaccc atacaattga tgtccttact gggagaggcc
4801 gcactccacg gcccaacatt ctacagtaaa atcagcaagt tagtcattgc agagctaaaa
4861 gaaggtggca tggattttta cgtgcccagg caagagccaa tgttcagatg gatgagattc
4921 tcggatctga gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat
4981 ggcgtcgaat gacgccaacc catctgatgg gtccgcagcc aacctcgtcc cagaggtcaa
5041 caatgaggtt atggctttgg agcccgttgt cggtgccgct attgcggcac ctgtagcggg
5101 ccaacaaaat gtaattgacc cctggattag aaataatttt gtacaagccc ctggtggaga
5161 gttcacagta tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccttaggccc
5221 tgatctgaat ccctacctat ctcatttggc cagaatgtat aatggttatg caggtggttt
5281 tgaagtgcag gtgatccttg cggggaacgc gttcaccgcc ggaaaaatca tatttgcagc
5341 agtcccacca aattttccaa ctgaaggctt gagtcccagc caggtcacta tgttccccca
5401 cataatagta gatgttaggc aattggaacc tgtgttgatc cccttacctg atgttaggaa
5461 caacttctat cactataatc agtcaaatga ttctaccatt aaattgatag caatgctgta
5521 tacaccactt agggccaata atgccgggga tgatgtcttc acagtctctt gtcgagtcct
5581 cacgaggcca tcccctgatt ttgacttcat atttttggtg ccacctacag ttgagtcaag
5641 aactaagcca tttactgtcc caatcttgac tgttgaagaa atgaccaatt caagattccc
5701 cattcctttg gaaaaattgt tcacgggtcc cagcagtgcc tttgttgttc aaccacaaaa
5761 tggcagatgc acgactgatg gcgtgctctt aggcaccacc caactgtctc ctgtcaacat
5821 ctgcaccttc agaggggatg tcacccacat tgcgggttct cgtaattaca caatgaattt
5881 ggcctctcta aattggaaca attacgaccc aacagaagaa atcccagccc ctctgggaac
5941 tccagatttt gtgggaaaga tccaaggtgt gctcactcaa accacaaagg gagatggctc
6001 gacccggggc cataaagcta cagtttacac tgggagtgcc gactttactc caaagctggg
6061 cagtgttcaa tttgctactg atacagaaaa tgattttgaa actcaccaaa acacaaaatt
6121 caccccagtc ggtgtcatcc aggatggtgg caccacccac cgaaatgaac cccaacaatg
6181 ggtgctccca agttattcag gtagaaatgt ccataatgta cacctagccc ctgctgtagc
6241 ccccaatttt ccgggtgaac aacttctttt cttcaggtcc actatgcccg gatgcagcgg
6301 gtatcccaac atggatttgg attgcctact cccccaggag tgggtgcagc acttctacca
6361 agaggcagct ccagcacaat ctgatgtggc tctattgaga tttgtgaatc cagacacggg
6421 tagggtcttg tttgagtgca aacttcataa atcaggctat gtcacagtgg ctcacaccgg
6481 ccaacatgat ttggtcatcc cccccaatgg ttattttagg tttgactcct gggttaatca
6541 attctataca cttgccccca tgggaaatgg aacggggcgt agacgtgctt tataatggct
6601 ggagctttct ttgctggatt ggcatctgat gtccttagct ctggacttgg ttccctaatc
6661 aatgctgggg ctggggctat caaccaaaag attgattttg aaaataatag aaaattgcag
6721 caagcttcct ttcagtttag cagtaatcta caacaggctt cctttcaaca tgataaagag
6781 atgctccaag cacaaattga ggccactaaa aagttgcaac aggaaatgat gaaagtcaaa
6841 caggcaatgc tcttagaagg tggattctct gaaacagatg cagcccgtgg ggcaatcaac
6901 gcccccatga caaaggcttt agactggagc ggaacaaggt actgggcccc tgatgctagg
6961 actacgacat acaatgcagg ccgcttttcc acccctcaac cttcgggggc actgctagga
7021 agaatcaatc ccaggactcc tacccccgct cggggctccc ccagtatatc ttccaatgct
7081 tctactgctg cttctatata ttcaaatcaa actgtttcaa cgagacttgg ttctacagct
7141 ggttctggca ccaatgtctc gagtctcccg ccaactgcaa ggactaggag ctgggttgag
7201 gatcaaaaca gaaacttgtc acctttcatg aggggggctc acaacatatc gtttgtcacc
7261 ccaccatcta gcagatcctc cagccaaggc acagtctcaa ccgtgcctaa agatgttttg
7321 gactcctgga ctggcgcttt taacacgcgc aggcagcctc tcttcgctca cattcgtagg
7381 cgaggggagt cacgggtgta a
//