Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| AB447431 | GII.4 Den Haag | |
|
|---|---|---|---|
| GII.P4 Den Haag |
ORF1: 3..5102
ORF2: 5083..6705
ORF3: 6705..7511
LOCUS AB447431 7511 bp RNA linear VRL 05-NOV-2008
DEFINITION Norovirus Hu/GII-4/Hokkaido5/2006/JP genomic RNA, complete genome.
ACCESSION AB447431
VERSION AB447431.1
KEYWORDS .
SOURCE Norovirus Hu/GII-4/Hokkaido5/2006/JP
ORGANISM Norovirus Hu/GII-4/Hokkaido5/2006/JP
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1
AUTHORS Motomura,K., Oka,T., Yokoyama,M., Nakamura,H., Mori,H., Ode,H.,
Hansman,G.S., Katayama,K., Kanda,T., Tanaka,T., Takeda,N. and
Sato,H.
CONSRTM and the Norovirus Surveillance Group of Japan
TITLE Identification of monomorphic and divergent haplotypes in the
2006-2007 norovirus GII/4 epidemic population by genomewide tracing
of evolutionary history
JOURNAL J. Virol. 82 (22), 11247-11262 (2008)
PUBMED 18768979
REFERENCE 2 (bases 1 to 7511)
AUTHORS Motomura,K. and Sato,H.
TITLE Direct Submission
JOURNAL Submitted (14-JUL-2008) 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..7511
/organism="Norovirus Hu/GII-4/Hokkaido5/2006/JP"
/mol_type="genomic RNA"
/strain="Hu/GII-4/Hokkaido5/2006/JP"
/isolation_source="stool"
/db_xref="taxon:546955"
/country="Japan:Hokkaido"
CDS 3..5102
/note="contains N-terminal, NTPase, 3A, VPg, 3Cpro and
3Dpol"
/codon_start=1
/product="polyprotein"
/protein_id="BAG70439.1"
/translation="MKMASNDASAAAVANSNNDTAKSSSDKMFSSMAVTFKRALGARP
KQPPPREIPQRPPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPE
ETNTAFSVPPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAIS
LAKVELTPLSLFWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDS
WLSRRMIQRTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGK
LRPLNIINILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPED
LVVELVPVVMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFP
KKEEANELAMVRSIEDAVLDLEAIENNHMTTLLKDKDSLTTYMRTLDLEEEKARKLST
KSASPDIVGTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREV
AKRIAASLTGDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTC
PLTLNCDRIENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEK
AKRDFPGQPDMWKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARA
SGLLHERLDEFELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTM
PELKQALKNISIKKCQIVYSGCTYTLESDGKGNVRVDRVQSTSVQTNNELAGALHHLR
CARIRYYVKCVQEALYSIIQIAGAAFVTTRIIKRMNIQDLWSKPQVENTEEATNKDGC
PKPKDDEEFVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNG
KYSIEEYLQDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLV
TGSEIRKRNPEDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSP
SLFITSTHVIPQDAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEG
TVVTLLIKRSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGD
CGCPYIYKRGNDYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILG
PGSAPKLSTKTKFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEP
RGKPPKPSVLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCW
NGESFTGKLADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDL
ATMIRCARAFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWD
STQQRAVLAAALEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCT
SQWNSIAHWLLTLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLK
EYGLKPTRPDKTEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGP
NHEDPSESMIPHSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQE
PMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
CDS 5083..6705
/codon_start=1
/product="VP1"
/protein_id="BAG70440.1"
/translation="MKMASNDANPSDGSTANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAYTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6705..7511
/codon_start=1
/product="VP2"
/protein_id="BAG70441.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARGSPSASS
NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEGQNRNLSPFMRGAHDI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
ORIGIN
1 gaatgaagat ggcgtctaac gacgcttccg ctgccgctgt tgctaacagc aacaacgaca
61 ccgcaaaatc ttcaagtgac aaaatgtttt ctagcatggc tgtcactttt aaacgagccc
121 tcggggcgcg gcctaaacag ccccccccga gggaaatacc acaaagaccc ccacgaccac
181 ctactccaga actggtcaaa aagatccctc ctcccccgcc caacggagag gatgaagtag
241 tggtttctta tagtgccaaa gatggcgttt ccggtttacc tgagctttcc accgtcaggc
301 aaccagaaga aaccaatacg gccttcagtg tccctccact caatcagagg gagaataggg
361 atgctaagga accactgact ggaacaattc tggaaatgtg ggatggagaa atctaccatt
421 atggcctgta tgttgagcga ggtcttgtgc tgggtgtgca caaaccacca gctgccatta
481 gcctcgccaa ggtcgaacta acaccactct ccttgttctg gagacccgtg tacactcctc
541 agtacctcat ctctccagac actctcaaga aattacacgg agaaacattt ccctacacag
601 cctttgacaa caactgctat gccttttgtt gctgggtcct ggatctaaat gactcgtggc
661 tgagtaggag aatgatccag agaacaactg gcttcttcag accctaccaa gattggaata
721 ggaaacccct ccccactatg gatgattcca aattaaagaa ggtagctaac atattcctgt
781 gcaccctgtc ttcgctattc accaggccca taaaagacat aatagggaag ttaaggcctc
841 tcaacatcat caacatcctg gcttcatgtg attggacttt cgcaggcata gtggagtcct
901 tgatactctt ggcagagctc tttggagtct tctggacacc cccagatgtg tctgcgatga
961 ttgccccctt actcggtgat tttgagttac aaggacctga ggaccttgtg gtggagctcg
1021 tccctgtagt aatgggggga attggtttgg tgctaggatt caccaaagag aagattggaa
1081 aaatgttgtc atctgctgca tccaccttga gagcttgtaa agatcttggt gcatatgggc
1141 tagagatcct aaagttagtc atgaagtggt tcttcccgaa gaaagaggaa gcaaatgaac
1201 tggctatggt gagatccatc gaggatgcag tactggacct tgaggcaatt gaaaacaacc
1261 atatgaccac cttgctcaaa gacaaagaca gcctgacaac ctatatgaga acccttgacc
1321 tcgaggagga gaaagccaga aaactctcaa ccaagtctgc ttcacctgac atcgtgggca
1381 caatcaacgc ccttctggcg agaatcgccg ctgcacgctc cctggtgcac cgagcgaagg
1441 aggagctttc cagcagacca agacctgtag tcttgatgat atcaggcaga ccaggaatag
1501 gaaagaccca ccttgctagg gaagtggcta agagaatcgc agcctccctc acaggagacc
1561 agcgtgtagg cctcatccca cgcaatggcg tcgaccactg ggatgcgtac aagggggaga
1621 gggtcgtcct atgggacgac tatggaatga gcaatcccat ccacgacgcc ctcaggttgc
1681 aagaactcgc tgacacttgc cccctcactc taaattgtga caggattgag aataaaggaa
1741 aggtctttga cagcgatgtc atcattatca ctactaatct ggccaaccca gcaccactgg
1801 actatgtcaa ctttgaagcg tgctcgaggc gtatcgattt cctcgtgtat gcagaagccc
1861 ccgaggtcga aaaggcgaag cgtgacttcc cgggccaacc tgacatgtgg aaaaacgctt
1921 ttagttctga tttctcacac ataaaattgg cactggctcc acaaggtggc tttgataaga
1981 acgggaacac cccacacggg aagggcgtca tgaagactct caccactggc tccctcattg
2041 cccgggcatc agggctgctc catgagagat tggatgagtt tgaactacag ggcccagctc
2101 ttaccacctt caactttgac cgcaacaaag tgcttgcctt caggcagctt gctgctgaaa
2161 acaaatacgg gttgatggac acaatgaaag ttgggaggca gctcaaggat gtcaaaacca
2221 tgccagaact taaacaagca ctcaagaata tctcaatcaa gaagtgccag attgtgtata
2281 gtggttgcac ctacacactt gagtctgatg gcaagggcaa tgtgagagtt gacagagttc
2341 agagcacctc cgttcagacc aacaatgagc tggctggcgc cctgcaccat ctaaggtgcg
2401 ccagaatcag gtactatgtc aagtgtgttc aggaggccct gtattctatc atccagattg
2461 ctggggctgc atttgtcacc acgcgcatca tcaagcgtat gaacatccaa gacttatggt
2521 ccaagccaca agtggaaaac acagaggagg ctaccaacaa ggacgggtgc ccaaaaccca
2581 aagatgatga ggagttcgtc atttcatctg acgacattaa aactgagggt aagaaaggga
2641 agaacaagac tggccgtggc aagaagcaca cagccttctc aagtaaaggt ctcagtgatg
2701 aagagtatga tgagtacaag agaattagag aggaaaggaa tggcaagtac tccatagaag
2761 agtaccttca ggacagggac aaatactatg aggaggtggc cattgccagg gcgaccgagg
2821 aagacttctg tgaagaggag gaggccaaaa tccggcaaag gatcttcaga ccaacaagga
2881 aacaacgcaa ggaagaaaga gcttctctcg gtttagtcac aggttctgaa attaggaaga
2941 gaaacccaga agacttcaag cccaagggga aactatgggc tgacgatgac agaagtgtgg
3001 actacaatga aaaactcagt tttgaggccc caccaagcat ctggtcaagg atagtcaact
3061 ttggctcagg ttggggcttc tgggtctccc ccagcctgtt cataacatca acccacgtca
3121 taccccagga cgcaaaggag ttctttggag tccccatcaa acaaatacag gtacacaagt
3181 caggcgaatt ctgtcgcttg aggttcccaa aaccaatcag gactgatgtg actggcatga
3241 tcttggaaga aggtgcgccc gaaggcaccg tggtcacact actcatcaaa aggtctactg
3301 gagaactcat gcccctagca gctagaatgg ggacccatgc aaccatgaaa atccaagggc
3361 gcactgttgg aggtcagatg ggcatgcttc tgacaggatc caacgccaaa agcatggatc
3421 taggcaccac accaggtgat tgcggctgtc cctacatcta caagagagga aatgactatg
3481 tggtcattgg agtccacacg gctgccgctc gtgggggaaa cactgtcata tgtgccaccc
3541 aggggggtga gggggaagct acacttgaag gtggtgacag taagggaaca tactgtggtg
3601 caccaatcct aggcccaggg agtgccccaa aacttagcac caaaaccaaa ttctggagat
3661 catccacagc accactccca cctggcacct atgaaccagc ctaccttggt ggcaaggacc
3721 ccagagtcaa gggtggcccc tcgttgcagc aagtcatgag ggaccagctg aaaccattta
3781 cagagcctag gggtaagcca ccaaagccaa gtgtgttaga agctgccaag aaaaccatca
3841 tcaatgtcct tgaacaaaca attgacccac ctgagaagtg gtcgttcgca caagcttgcg
3901 cgtcccttga caagaccact tctagcggcc atccgcacca catgcggaaa aacgactgct
3961 ggaacgggga atccttcaca ggcaagctgg cagaccaggc ttccaaggcc aacctgatgt
4021 ttgaagaagg gaagaacatg accccagtct acacaggtgc acttaaggat gaattagtca
4081 aaactgataa aatttatggt aagatcaaga agaggcttct ctggggctcg gatttagcaa
4141 ccatgatccg gtgtgctcga gcattcggag gcctaatgga tgaactcaaa gcacactgtg
4201 tcacacttcc tatcagagtt ggtatgaata tgaatgagga tggccccatc atcttcgaga
4261 agcattccag gtacagatac cactatgatg ctgattactc tcggtgggat tcaacacaac
4321 agagagccgt gctggcagct gctctagaaa ttatggttaa attctcctca gaaccacatt
4381 tggctcaggt agtagcagaa gaccttcttt ctcctagcgt ggtggatgtg ggtgacttca
4441 caatatcaat caacgagggt cttccctctg gggtgccctg cacctcccaa tggaactcca
4501 tcgcccactg gcttctcact ctctgtgcac tctccgaagt tacaaatttg tccccagaca
4561 tcatacaggc taattctctc ttctccttct atggtgatga tgaaattgtt agtacagaca
4621 taaaattaga cccagagaag ttgacagcaa agcttaagga atacgggttg aaaccaaccc
4681 gccctgataa aactgaagga cctcttgtca tttctgaaga cttagatggt ttgactttcc
4741 tgcggagaac tgtgacccgc gacccagctg gttggtttgg aaaactggag cagagctcaa
4801 tactcaggca aatgtactgg actaggggcc ccaaccatga agatccatct gaatcaatga
4861 ttccacactc tcaaagaccc atacaattga tgtccttact gggagaggcc gcactccacg
4921 gcccaacatt ctacagtaaa atcagcaaat tagtcattgc agagctaaaa gaaggtggta
4981 tggattttta cgtgcccagg caagagccaa tgttcagatg gatgagattc tcagatctga
5041 gcacgtggga gggcgatcgc aatctggctc ccagttttgt gaatgaagat ggcgtcgaat
5101 gacgccaacc catctgatgg gtccacagcc aacctcgtcc cagaggtcaa caatgaggtt
5161 atggctttgg agcccgttgt cggtgccgct attgcggcgc ctgtagcggg ccaacaaaat
5221 gtaattgacc cctggattag aaataatttt gtacaagccc ctggtggaga gttcacagta
5281 tcccctagaa acgctccagg tgaaatacta tggagcgcgc ccttaggccc tgatctgaat
5341 ccctacctat ctcatttggc caggatgtat aatggttatg caggtggttt tgaagtgcag
5401 gtgatcctcg cggggaacgc gttcaccgcc ggaaaaatta tatttgcagc agtcccacca
5461 aattttccaa ctgaaggctt gagtcccagc caggtcacta tgttccccca cataatagtg
5521 gatgttaggc aattggaacc tgtgttgatc cccttacctg atgttaggaa taacttctat
5581 cactataacc agtcaaatga ttctaccatt aaattgatag caatgctgta tacaccactt
5641 agggctaata atgctgggga tgacgtcttc acagtctctt gtcgagtcct cacgaggcca
5701 tcccctgatt ttgattttat atttttggtg ccacctacag ttgagtcaag aactaaacca
5761 tttactgtcc caatcttaac tgttgaagaa atgaccaatt caagattccc cattcctttg
5821 gaaaaattgt tcacgggtcc cagcagtgcc tttgttgttc aaccacaaaa tggcagatgc
5881 acgactgatg gcgtgctctt aggcaccacc caactgtctc ctgtcaacat ctgcaccttc
5941 agaggggatg tcacccacat tgcaggttct cgtaattaca caatgaattt ggcttctcta
6001 aattggaaca attatgaccc aacagaagaa attccagccc ctctaggaac tccagatttc
6061 gtgggaaaga tccaaggtgt gctcactcaa accacaaagg gagatggctc gacccgtggc
6121 cataaagcta cagtttacac tgggagtgcc ccctttactc caaagctggg cagtgttcaa
6181 ttcagtactg atacagaaaa tgattttgaa actcaccaaa acacaaaatt caccccagtc
6241 ggtgtcatcc aggatggtgg caccacccac cgaaatgaac cccaacaatg ggtgctccca
6301 agttattcag gtagaaatgt ccataatgta cacctagccc ctgctgtagc ccccactttt
6361 ccgggtgaac aacttctttt cttcaggtcc actatgcccg gatgcagcgg gtatcccaac
6421 atggatttgg attgcctact cccccaggag tgggtgcagc acttctacca agaggcagct
6481 ccagcacaat ctgatgtggc tctattgaga tttgtgaatc cagacacggg tagggtcctg
6541 tttgagtgca agcttcataa atcaggctat gttacagtgg cttacaccgg ccagcatgat
6601 ttggtcatcc cccccaatgg ctattttagg tttgattcct gggttaatca attctacaca
6661 cttgccccca tgggaaatgg aacggggcgt agacgtgctc tataatggct ggagctttct
6721 ttgctggatt ggcatctgat gtccttagct ctggacttgg ttccttaatc aatgctgggg
6781 ctggggctat caaccaaaag attgattttg aaaataacag aaaattgcag caagcttcct
6841 tccagtttag cagtaatcta caacaggctt cctttcaaca tgataaagag atgctccaag
6901 cacaaattga ggctactaaa aagttgcaac aggaaatgat gaaagtcaaa caggcaatgc
6961 tcttagaagg tggattctct gaaacagatg cagcccgtgg ggcaatcaac gcccccatga
7021 caaaggcttt ggactggagc ggaacaaggt actgggcccc tgatgctagg actacaacat
7081 acaatgcagg ccgcttttcc acccctcaac cttcgggggc actgccagga agaatcaatc
7141 ccaggactcc tacccccgct cggggctccc ccagcgcatc ttctaatgct tctactgcta
7201 cttctatata ttcaaatcaa actgtttcaa cgagacttgg ttctacagct ggttctggca
7261 ccaatgtctc gagtctcccg tcaactgcaa ggactaggag ctgggttgag ggtcaaaaca
7321 gaaatttgtc acctttcatg aggggggctc acgacatatc gttcgtcacc ccaccatcta
7381 gcagatcctc tagccaaggc acagtctcaa ccgtgcctaa agaagttttg gactcctgga
7441 ctggcgcttt caacacgcgc aggcagcctc tcttcgctca cattcgtagg cgaggggagt
7501 cacgggtgta a
//