Typing tool
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Typing tool
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Complete norovirus genomes
| JX445162 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS JX445162 7500 bp RNA linear VRL 10-OCT-2012
DEFINITION Norovirus Hu/GII.4/AlbertaEI425/2008/CA non-structural polyprotein
gene, partial cds; and major capsid protein and minor structural
protein genes, complete cds.
ACCESSION JX445162
VERSION JX445162.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/AlbertaEI425/2008/CA
ORGANISM Norovirus Hu/GII.4/AlbertaEI425/2008/CA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7500)
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..7500
/organism="Norovirus Hu/GII.4/AlbertaEI425/2008/CA"
/mol_type="genomic RNA"
/strain="Hu/GII.4/AlbertaEI425/2008/CA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1238280"
/country="Canada"
/collection_date="Nov-2008"
/note="genotype: GII.4"
CDS <1..5069
/codon_start=3
/product="non-structural polyprotein"
/protein_id="AFU55715.1"
/translation="AVANSNNDTAKSSSDKMFSSMAVTFKRALGARPKQPPPREIPQR
PPRPPTPELAKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKLALKNVS
IKKCQIVYSGCTYTLESDGKGNVKVDRIQSTSIQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATNKDGCPKPRDNEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DRYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP
HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
CDS 5050..6672
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="AFU55716.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
GTTHRNEPQQWVLPSYSGRNVQNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLI
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6672..7478
/codon_start=1
/product="minor structural protein"
/protein_id="AFU55717.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAVLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARITTYNAGRFSTPQPPGALPGRINPRTPTPARGSPSTSS
NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPREVLDSWTGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7479..>7500
ORIGIN
1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aagtgacaaa atgttttcta
61 gcatggctgt cacctttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aaataccaca aagacctcca cgaccaccta ctccagaatt ggccaaaaag atccctcctc
181 ccccgcccaa cggagaggat gaagtagtgg tttcttatag tgccaaagat ggcgtttccg
241 gtttacctga gctttccacc gtcaggcaac cggaagaaac caatacggcc ttcagtgtcc
301 ctccactcaa tcagagggag aatagggatg ctaaggagcc actgactgga acaattctgg
361 aaatgtggga tggagaaatc taccattatg gcctgtatgt tgagcgaggt cttgtgctgg
421 gtgtgcacaa accaccagct gccattagcc tcgccaaggt cgaactaaca ccactctcct
481 tgttctggag acctgtgtac actcctcagt acctcatctc tccagacact ctcaagaaat
541 tacacggaga aacttttccc tacacagcct tcgacaacaa ttgctatgcc ttttgttgct
601 gggtcttgga tctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct
661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agctaacata ttcctgtgca ccctgtcttc gctatttacc aggcccataa
781 aagacataat agggaagtta agacctctca acatcatcaa catcctggct tcatgtgatt
841 ggactttcgc aggcatagtg gagtccttga tactcttggc agagctcttt ggagtcttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgatttc gagttacaag
961 gacctgagga ccttgtagtg gagctcgtcc ctgtagtaat ggggggaatt ggtttggtgc
1021 taggattcac caaagagaag attggaaaaa tgttgtcatc tgctgcatct accttgagag
1081 cttgtaaaga tcttggtgcg tatgggctag agatcctaaa gttagtcatg aaatggttct
1141 tcccgaagaa agaggaagca aatgaactgg ctatggtgag atccatcgag gatgcagtac
1201 tggaccttga ggcaattgaa aacaaccata tgaccacctt gctcaaagac aaagacagcc
1261 tggcaaccta tatgagaacc cttgacctcg aggaagagaa agccagaaaa ctctcaacca
1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tctggcgaga atcgccgctg
1381 cacgctcctt ggtgcaccga gcgaaggagg agctttccag cagaccaaga cctgtagtct
1441 tgatgatatc aggcagacca ggaataggga agacccacct tgctagggaa gtggctaaga
1501 gaatcgcagc ctccctcaca ggagaccagc gtgtaggcct catcccacgc aatggcgttg
1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagca
1621 atcccatcca cgacgccctc aggctgcaag agctcgctga cacttgcccc ctcactctaa
1681 attgtgacag gattgagaat aaaggaaagg tctttgacag cgatgtcatc attatcacta
1741 ctaacttggc caacccagca ccactggact atgtcaactt tgaagcgtgc tcgaggcgca
1801 tcgatttcct cgtgtatgca gaagcccccg aggtcgaaaa ggcgaagcgt gacttcccgg
1861 gccaacctga catgtggaaa aacgctttta gttctgattt ctcacacata aaattggcac
1921 tggctccaca aggtggcttt gataagaacg ggaacacccc acacgggaag ggcgtcatga
1981 agactctcac cactggctcc ctcattgccc gggcatcagg gttgctccat gagagattgg
2041 atgagtttga actacagggc ccagctctta ccaccttcaa ctttgaccgc aacaaagtgc
2101 ttgctttcag gcagcttgct gctgaaaaca agtacgggtt gatggacaca atgaaagttg
2161 ggaggcagct caaggatgtc aaaaccatgc cagaacttaa actagcactc aagaatgtct
2221 caatcaagaa gtgccagatt gtgtatagtg gttgcaccta cacacttgag tctgatggca
2281 agggcaatgt gaaagttgac agaattcaga gcacctccat tcagaccaat aatgagctgg
2341 ctggcgccct gcaccaccta aggtgcgcca gaatcaggta ctatgttaag tgtgttcagg
2401 aggccctgta ttctatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcatca
2461 agcgtgtgaa cattcaagac ttatggtcca agccacaagt ggaaaacaca gaggaggcta
2521 ccaacaagga cgggtgccca aaacccagag ataatgagga gttcgtcatt tcatctgacg
2581 acattaaaac tgagggtaag aaagggaaaa acaagaccgg ccgtggcaag aagcacacag
2641 ccttctcaag taaaggtctt agtgatgaag agtatgatga gtacaagaga attagagagg
2701 aaaggaatgg caagtactcc atagaagagt accttcagga cagggacaga tactatgagg
2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagatcc
2821 ggcaaaggat cttcagacca acaaggaaac aacgcaagga agaaagagct tctctcggtt
2881 tagtcacagg ttccgaaatt aggaagagga acccagaaga cttcaagcct aaggggaaac
2941 tatgggctga cgatgacaga agtgtggact acaatgaaaa actcagcttt gaggccccac
3001 caagcatctg gtcaaggata gtcaactttg gctcaggctg gggcttctgg gtctccccca
3061 gcttgttcat aacatcaacc cacgtcatac cccagggcgc aaaggagttc tttggagtcc
3121 ccatcaaaca aattcaggta cacaagtcag gcgaattctg tcgcttgagg ttcccaaaac
3181 caatcaggac tgatgtgact ggcatgatct tggaagaagg tgcgcccgaa ggtaccgtgg
3241 tcacactact catcaaaagg tctactggag aactcatgcc tctagcagct agaatgggga
3301 cccatgcaac catgaaaatc caagggcgca ctgttggagg ccagatgggc atgcttctga
3361 caggatctaa cgccaaaagc atggatctag gcaccacacc aggtgattgc ggctgtccct
3421 acatctacaa gagaggaaat gactatgtgg tcattggagt ccacacggct gccgctcgtg
3481 ggggaaacac tgtcatatgt gccacccagg ggggtgaggg ggaagctaca cttgaaggtg
3541 gtgacagtaa gggaacatac tgtggtgcac caatcctagg cccagggagt gccccaaaac
3601 ttagcaccaa aaccaaattc tggagatcat ccacagcacc actcccacct ggcacctatg
3661 aaccagccta ccttggtggc aaggacccca gagtcaagga tggcccctcg ctgcaacaag
3721 tcatgaggga ccagctgaaa ccatttacag agcctagggg taagccacca aagccaagcg
3781 tgttagaagc tgccaagaaa accatcatca atgtccttga acaaacaatt gacccacctg
3841 agaagtggtc gttcgcacaa gcttgcgcgt cccttgacaa gaccacttct agcggccatc
3901 cgcaccacat gcggaaaaac gactgctgga acggggaatc cttcacaggc aagctggcag
3961 accaggcttc caaggccaac ctgatgtttg aagaagggaa gaacatgacc ccagtctaca
4021 caggtgcact taaggatgaa ttagtcaaaa ctgacaaaat ttatggtaag atcaaaaaga
4081 ggcttctctg gggctcggat ttagcaacca tgatccggtg tgctcgagca ttcggaggcc
4141 taatggatga actcaaagca cactgtgtca cacttcctat cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaagc attccaggta cagataccac tatgatgctg
4261 attactctcg gtgggattca acacaacaga gagccgtgct ggcagctgct ctagaaatca
4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggtagt agcagaagac cttctttctc
4381 ctagcgtggt ggatgtgggt gacttcacaa tatcaatcaa cgagggtctt ccctctgggg
4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcactct
4501 ccgaagttac aaacttgtcc ccagacatca tacaggctaa ttctctcttc tccttctatg
4561 gtgatgatga aattgttagt acagacataa aattagaccc agagaagttg acagcaaagc
4621 ttaaggaata cgggttgaaa ccaacccgtc ctgataaaac tgaaggacct cttgttattt
4681 ctgaagactt agatggtttg actttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaaa actggagcag agctcaatac tcaggcaaat gtactggact aggggcccca
4801 accatgaaga tccatctgaa tcaatgattc cacactctca aagacccata caattgatgt
4861 ccttactggg agaggccgca ctccacggcc caacattcta cagtaaaatc agcaaattag
4921 tcattgcaga gctaaaagaa ggtggtatgg atttttacgt gcccagacaa gagccaatgt
4981 tcagatggat gagattctca gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgtcgg tgccgctatt
5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgta
5221 caagcccctg gtggagagtt cacagtatcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct taggccctga tctgaatccc tacctatctc atttggccag aatgtataat
5341 ggttatgcag gtggttttga ggtgcaggtg atcctcgcgg ggaacgcgtt caccgccgga
5401 aaaattatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag tcccagccag
5461 gtcactatgt tcccccacat aatagtggat gttaggcaat tggaacctgt gttgatcccc
5521 ttacctgatg ttaggaataa cttctatcat tataatcagt caaatgattc taccattaaa
5581 ttgatagcaa tgttgtatac accacttagg gctaataatg ctggggaaga tgtcttcaca
5641 gtctcttgcc gagttctcac gaggccatcc cctgattttg attttatatt tttggtgcca
5701 cctacagttg agtcaagaac taaaccattt actgtcccaa tcttaactgt tgaagaaatg
5761 accaattcaa gattccccat tcctttggaa aaattattca cgggtcccag cagcgccttt
5821 gttgttcaac cacaaaatgg cagatgcacg actgatggcg tgctcttagg caccacccaa
5881 ctgtctcctg tcaacatctg caccttcaga ggggatgtca cccacattgc aggttctcgt
5941 aattacacga tgaatttggc ttctctaaat tggaacaatt atgacccaac agaagaaatt
6001 ccagcccctc taggaactcc agatttcgtg ggaaagatcc aaggcgtgct cacccaaacc
6061 acaaagggag atggctcgac ccgtggccat aaagctacag tttacactgg gagtgccccc
6121 tttactccaa agctgggcag tgttcaattc agtactgata cagaaaatga ttttgaaact
6181 caccaaaaca caaaattcac cccagtcggt gtcatccagg atggtggcac cacccaccga
6241 aatgaacccc aacaatgggt gctcccaagt tattcaggta gaaatgtcca aaatgtacac
6301 ctagcccctg ctgtagcccc cacttttccg ggtgaacaac ttcttttctt taggtccact
6361 atgcccggat gcagcgggta tcccaacatg gatttggatt gcctactccc ccaggagtgg
6421 gtgcagcatt tctaccaaga ggcagctcca gcacaatctg atgtggctct attgagattc
6481 gtaaatccag acacgggtag ggtcctgttt gagtgcaagc ttcataaatc aggctatgtc
6541 acagtggctc acaccggcca gcatgatttg attatccccc ccaatggtta ttttaggttt
6601 gattcctggg ttaatcaatt ctacacactt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtc cttagctctg
6721 gacttggttc cctaatcaat gctggggctg gggctatcaa ccaaaagatt gattttgaaa
6781 ataacagaaa attgcagcaa gcttccttcc agtttagtag taatctacaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc cactaaaaag ttgcaacagg
6901 aaatgatgaa agtcaaacag gcagtgctct tagaaggtgg attctctgaa acagatgcag
6961 cccgtggggc aatcaacgct cctatgacaa aggctttgga ctggagcgga acaaggtact
7021 gggcccctga tgctaggatt acaacataca atgcaggccg tttttccacc cctcaacctc
7081 cgggggcact gccaggaaga atcaatccca ggactcctac ccccgctcgg ggctccccca
7141 gcacatcttc taatgcttct actgctactt ctatatattc aaatcaaact gtttcaacga
7201 gacttggttc tacagctggt tctggtacca atgtctcgag tctcccgtca actgcaagga
7261 ctaggagttg ggtagaggat caaaacagaa atttgtcacc tttcatgagg ggggctcaca
7321 acatatcgtt cgtcacccca ccatctagca gatcctctag ccaaggcaca gtctcaaccg
7381 tgcctagaga agttttggac tcctggactg gcgcttttaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta
//