Typing tool
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Typing tool
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Complete norovirus genomes
| JX445163 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5068
ORF2: 5049..6671
ORF3: 6671..7477
LOCUS JX445163 7490 bp RNA linear VRL 10-OCT-2012
DEFINITION Norovirus Hu/GII.4/AlbertaEI109/2009/CA non-structural polyprotein
gene, partial cds; and major capsid protein and minor structural
protein genes, complete cds.
ACCESSION JX445163
VERSION JX445163.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/AlbertaEI109/2009/CA
ORGANISM Norovirus Hu/GII.4/AlbertaEI109/2009/CA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7490)
AUTHORS Hasing,M.E., Lee,B.E., Preiksaitis,J.K., Tyrrell,G.J., Louie,M. and
Pang,X.L.
TITLE Direct Submission
JOURNAL Submitted (01-AUG-2012) Provincial Laboratory for Public Health
(ProvLab), 8440-112 Street, Edmonton, Alberta T6G 2J2, Canada
FEATURES Location/Qualifiers
source 1..7490
/organism="Norovirus Hu/GII.4/AlbertaEI109/2009/CA"
/mol_type="genomic RNA"
/strain="Hu/GII.4/AlbertaEI109/2009/CA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1238272"
/country="Canada"
/collection_date="Feb-2009"
/note="genotype: GII.4"
CDS <1..5068
/codon_start=2
/product="non-structural polyprotein"
/protein_id="AFU55718.1"
/translation="AVANSNNDTAKSSNDKMFSNMAVTLKRALGARPKQPPPREIPQR
PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL
NQRESRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNIINILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS
IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLASA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEITNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP
HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
CDS 5049..6671
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="AFU55719.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFGTDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6671..7477
/codon_start=1
/product="minor structural protein"
/protein_id="AFU55720.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRISTPARGSPSTSS
NASTATSIYSKQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQDTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7478..>7490
ORIGIN
1 cgctgttgct aacagcaaca acgacaccgc aaaatcttca aatgacaaaa tgttttctaa
61 catggctgtc actcttaaac gagccctcgg ggcgcggcct aaacagcccc ccccgaggga
121 aataccacaa agacccccac gaccacctac tccagaactg gtcaaaaaga tccctcctcc
181 cccgcccaac ggagaggatg aagtagtggt ttcttatagt gccaaagatg gcgtttccgg
241 tttgcctgag ctttccaccg tcaggcaacc ggaagaaacc aacacggcct tcagtgtccc
301 tccactcaat cagagggaga gtagggatgc caaggaacca ctgactggaa caattctgga
361 aatgtgggat ggagaaatct accattatgg cctgtatgtt gaacgaggtc ttgtgctggg
421 tgtacacaaa ccaccagctg ccattagcct cgccaaggtc gaattaacac cactctcctt
481 gttctggaga cctgtgtaca ctcctcagta cctcatttct ccagacactc tcaagaaatt
541 gcacggagaa acatttccct acacagcctt tgacaacaat tgctatgcct tttgttgctg
601 ggtcctggat ctaaacgact cgtggctgag taggagaatg atccagagaa caactggctt
661 cttcagaccc taccaagatt ggaataggaa acccctcccc actatggatg attccaaatt
721 aaagaaggta gctaacatat tcctgtgcgc cctgtcttcg ctattcacca ggcccataaa
781 agacataata ggaaagttaa ggcctctcaa catcatcaac atcctggctt catgtgattg
841 gactttcgca ggcatagtgg agtccttgat actcttggca gagctctttg gagtcttctg
901 gacaccccca gatgtgtctg cgatgattgc ccccttactc ggtgatttcg agttacaagg
961 acctgaggac cttgtagtgg agctcgtccc tgtagtaatg ggggggattg gtttggtgct
1021 aggattcacc aaagagaaga ttggaaaaat gttgtcatct gctgcatcca ccttgagagc
1081 ttgtaaagac cttggtgcat atgggctaga gatcctaaag ttagtcatga agtggttctt
1141 cccgaagaaa gaggaagcga atgaactggc tatggtgaga tccatcgagg atgcagtact
1201 ggaccttgag gcaattgaaa acaaccatat gaccaccttg ctcaaagaca aagacagcct
1261 ggcaacctac atgagaaccc ttgacctcga ggaagagaaa gccagaaaac tctcaaccaa
1321 gtccgcttca cccgacatcg tgggcacaat caacgccctt ctggcgagaa tcgccgctgc
1381 acgctccctg gtgcaccgag cgaaggagga gctttccagc agaccaagac ctgtagtctt
1441 gatgatatca ggcaggccag gaatagggaa gacccacctt gctagggaag tggctaagag
1501 aatcgcagcc tccctcacag gagaccagcg tgtaggcctt atcccacgca atggcgtcga
1561 tcattgggat gcgtacaagg gggagagggt cgtcctatgg gacgactatg gaatgagcaa
1621 ccccatccac gacgccctca ggctgcaaga actcgctgac acttgccccc tcactctaaa
1681 ttgtgacagg attgagaata aaggaaaggt ctttgacagc gatgtcatca ttatcactac
1741 taatctggcc aacccagcac cactggacta tgtcaacttt gaagcgtgct cgaggcgcat
1801 cgatttcctc gtgtatgcag aagcccccga ggtcgaaaag gcgaagcgcg acttcccggg
1861 ccaacccgac atgtggaaaa acgcttttag ctctgatttc tcacacataa aattggcact
1921 ggctccacaa ggtggctttg ataagaacgg gaacacccca cacgggaagg gcgtcatgaa
1981 gactctcacc actggctccc tcattgcccg ggcatcaggg ctgctccatg agagattgga
2041 tgagtttgaa ctacagggcc cagctcttac caccttcaac tttgaccgca acaaagtgct
2101 tgccttcagg cagcttgctg ctgaaaacaa atatgggttg atggacacaa tgaaagttgg
2161 gaggcagctc aaggatgtca aaaccatgcc agagcttaaa caagcactca agaatatctc
2221 aatcaagaag tgccagattg tgtacagtgg ttgcacctac acacttgagt ctgacggcaa
2281 gggcaatgtg aaagttgaca gagttcagag tacctccgtt cagaccaaca atgagctggc
2341 tggcgccctg caccatttaa ggtgcgccag aatcaggtac tatgtcaagt gtgttcagga
2401 ggccctgtat tctatcatcc agattgctgg ggctgccttt gtcaccacgc gcatcatcaa
2461 gcgtgtgaac attcaagact tatggtccaa gccacaagtg gaaaacacag aggaggctac
2521 cagcaaggac gggtgcccaa aacccaaaga tgatgaggag ttcgtcattt catctgacga
2581 cattaaaact gagggtaaga aagggaagaa caagactggc cgtggcaaga agcacacagc
2641 cttctcaagt aaaggtctca gtgatgaaga gtatgatgag tacaagagaa ttagagagga
2701 aagaaatggc aagtactcca tagaagagta ccttcaggac agggacaaat actatgagga
2761 ggtggccatt gccagggcga ccgaggaaga cttctgtgaa gaggaggagg ccaagatccg
2821 gcagaggatc ttcagaccaa caaggaaaca acgcaaggaa gaaagagctt ctctcggttt
2881 ggtcacaggt tctgaaatta ggaaaagaaa cccagaagac ttcaagccca aggggaaact
2941 atgggctgac gatgacagaa gtgtggacta caatgaaaaa ctcagttttg aggccccacc
3001 aagcatctgg tcaaggatag tcaactttgg ctcaggttgg ggcttctggg tctcccccag
3061 cctgttcata acatctaccc acgtcatacc ccagggcgca aaggagttct ttggagttcc
3121 catcaaacaa attcaggtgc acaagtcagg cgaattctgc cgcttgaggt tcccaaaacc
3181 aatcaggact gatgtgactg gcatgatctt ggaagaaggt gcgcccgaag gcaccgtggt
3241 cacactactc atcaaaaggc ctactggaga actcatgccc ctagcagcta ggatggggac
3301 ccatgcaacc atgaaaattc aagggcgcac tgttggaggt cagatgggca tgcttctgac
3361 aggatccaac gccaaaagca tggacctagg caccacacca ggtgattgcg gctgtcccta
3421 catctacaag agaggaaacg actatgtggt cattggagtc cacacggctg ccgctcgtgg
3481 gggaaacact gtcatatgtg ccacccaggg gggtgagggg gaagctacac ttgaaggtgg
3541 tgacagtaag ggaacatact gtggtgcacc aatcctaggc ccagggagtg ccccaaaact
3601 tagcaccaaa accaaattct ggagatcatc cacagcacca ctcccacctg gcacctatga
3661 accagcctac cttggtggca aagaccccag agtcaagggt ggcccctcgt tacagcaagt
3721 catgagggac cagctgaaac catttacaga gcctaggggt aagccaccaa agccaagtgt
3781 gttagaagct gccaagaaaa ccatcatcaa tgtccttgaa cagacaattg acccacctga
3841 gaagtggtcg ttcgcacaag cttgcgcgtc ccttgataag accacttcta gcggccatcc
3901 gcaccacatg cggaaaaacg actgctggaa cggggagtcc ttcacaggca agctggcaga
3961 ccaggcttcc aaggccaacc tgatgtttga agaagggaag aacatgaccc cagtctacac
4021 aggtgcactc aaggatgaat tagtcaaaac tgacaaaatt tatggtaaga tcaagaagag
4081 gcttctctgg ggctcggatc tagcaaccat gatccggtgt gctcgagcat tcggaggtct
4141 gatggacgaa ctcaaagcac actgtgtcac acttcctgtc agagttggta tgaatatgaa
4201 tgaggatggc cccatcatct tcgagaagca ttccaggtac agataccact atgatgctga
4261 ttactctcgg tgggattcaa cacaacagag agccgtgctg gcgtctgctc tagaaatcat
4321 ggttaaattc tcctcagaac cacatttggc tcaggtagta gcagaagacc ttctttctcc
4381 tagtgtggtg gatgtgggcg acttcacaat atcaatcaat gagggtcttc cctctggggt
4441 gccctgcacc tcccaatgga actccatcgc ccactggctt ctcactctct gtgcactctc
4501 cgaaatcaca aatttgtccc cagacatcat acaggctaat tctctcttct ccttctatgg
4561 tgatgatgaa attgttagta cagacataaa attagaccca gagaagttga cagcaaagct
4621 taaggagtat gggttgaaac caacccgccc tgacaaaact gaagggcctc ttgttatttc
4681 tgaagactta gacggtttga ctttcctgcg gagaactgtg acccgcgacc cagctggttg
4741 gtttgggaaa ctggaacaga gctcaatact caggcaaatg tactggacta ggggccccaa
4801 ccatgaagat ccatctgaat caatgatccc acactctcaa agacccatac aattgatgtc
4861 cttactgggg gaggccgcac tccacggccc aacattctac agcaaaatca gcaaattagt
4921 cattgcagag ctaaaagaag gtggcatgga tttttacgtg cccaggcaag agccaatgtt
4981 cagatggatg agattctcgg atctgagcac gtgggagggc gatcgcaatc tggctcccag
5041 ttttgtgaat gaagatggcg tcgaatgacg ccaacccatc tgatgggtcc gcagccaacc
5101 tcgtcccaga ggtcaacaat gaggttatgg ctttggagcc cgttgtcggt gccgctattg
5161 cggcgcctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac
5221 aagcccctgg tggagagttc acagtttccc ctagaaacgc tccaggtgaa atactatgga
5281 gcgcgccctt aggccctgat ctgaatccct acctatctca tttggccaga atgtataatg
5341 gttatgcagg tggttttgaa gtgcaggtga tcctcgcggg gaacgcgttc accgccggaa
5401 aaattatatt tgcagcagtc ccaccaaatt ttccaactga aggcttgagt cccagccagg
5461 tcactatgtt cccccacata atagtagatg ttaggcaatt ggaacctgtg ttgatcccct
5521 tacctgatgt taggaataac ttctatcatt ataatcagtc aaatgattct accattaaat
5581 tgatagcaat gttgtataca ccacttaggg ccaataatgc cggggatgat gtcttcacag
5641 tctcttgtcg agtcctcacg aggccatccc ctgattttga tttcatattt ttggtgccac
5701 ctacagttga gtcaagaact aagccgttta ctgtcccaat cttaactgtt gaagaaatga
5761 ccaattcaag attccccatt cctttggaaa aattgttcac gggtcccagc agtgcctttg
5821 ttgttcaacc acaaaatggc agatgcacga ctgatggcgt gctcttaggc accacccaat
5881 tgtctcctgt caacatctgc accttcagag gggatgtcac ccacattgcg ggttctcgta
5941 attacacaat gaacttggcc tctctaaatt ggaacaatta tgacccaaca gaagaaattc
6001 cagcccctct gggaactcca gatttcgtgg gaaagatcca aggtgtgctc actcagacca
6061 caaagggaga tggctcgacc cggggccata aagctacagt ttacactggg agtgctgact
6121 ttaccccaaa gctgggcagt gttcaatttg gtactgatac agagaatgat tttgaaactc
6181 accaaaacac aaaattcacc ccagtcggtg tcatccagga tggtagcacc acccaccgaa
6241 atgaacccca acaatgggtg ctcccaagtt attcaggtag aaatgtccat aatgtacacc
6301 tagcccctgc tgtagccccc aattttccgg gtgaacaact tctcttcttc aggtccacta
6361 tgcccggatg cagcgggtat cccaacatgg atttggattg cctgctcccc caggaatggg
6421 tgcagcactt ctaccaagag gcagctccag cacaatctga tgtggctcta ttgagatttg
6481 tgaatccaga cacgggtagg gtcctgtttg agtgcaaact tcataaatca ggctatgtca
6541 cagtggctca caccggccaa catgatttgg ttatcccccc caatggctat tttaggtttg
6601 attcctgggt taatcaattc tacacacttg cccccatggg aaatggaacg gggcgtagac
6661 gtgctttata atggctggag ctttctttgc tggattggca tctgatgtcc ttagctctgg
6721 acttggttcc ctaatcaatg ctggggctgg ggctatcaac caaaagattg attttgaaaa
6781 taatagaaaa ttgcagcaag cttcctttca gtttagcagt aatctacaac aggcttcctt
6841 tcaacatgat aaagagatgc tccaagcaca aattgaggcc actaaaaagt tgcaacaaga
6901 aatgatgaaa gtcaaacagg caatgctctt agaaggtgga ttctctgaaa cagatgcagc
6961 ccgtggggca atcaacgccc ccatgacaaa agctttggac tggagcggaa caaggtactg
7021 ggcccctgat gctaggacta caacatataa tgcaggccgc ttttccaccc ctcaaccttc
7081 gggggcactg ccaggaagaa tcaatcccag gatttctacc cccgcacggg gctcccccag
7141 cacatcttcc aatgcttcta ctgctacttc tatatattca aagcaaactg tttcaacgag
7201 acttggttct acagctggtt ctggcaccaa tgtctcgagt ctcccgtcaa ctgcaaggac
7261 taggagttgg gttgaggatc aaaacagaaa tttgtcacct ttcatgaggg gggctcacaa
7321 catatcgttt gtcaccccac catctagcag atcctctagc caagacacag tctcaaccgt
7381 gcctaaagaa gttttggact cctggactgg cgctttcaac acgcgcaggc agcctctctt
7441 cgctcacatt cgtaggcgag gggagtcacg ggtgtaatgt gaaaagacaa
//