Typing tool
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Typing tool
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Complete norovirus genomes
| JX445160 | GII.4 Den Haag | |
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| GII.P4 Den Haag |
ORF1: 1..5069
ORF2: 5050..6672
ORF3: 6672..7478
LOCUS JX445160 7500 bp RNA linear VRL 10-OCT-2012
DEFINITION Norovirus Hu/GII.4/AlbertaEI102/2008/CA non-structural polyprotein
gene, partial cds; and major capsid protein and minor structural
protein genes, complete cds.
ACCESSION JX445160
VERSION JX445160.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/AlbertaEI102/2008/CA
ORGANISM Norovirus Hu/GII.4/AlbertaEI102/2008/CA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
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/AlbertaEI102/2008/CA"
/mol_type="genomic RNA"
/strain="Hu/GII.4/AlbertaEI102/2008/CA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1238271"
/geo_loc_name="Canada"
/collection_date="Feb-2008"
/note="genotype: GII.4"
CDS <1..5069
/codon_start=3
/product="non-structural polyprotein"
/protein_id="AFU55709.1"
/translation="AVANSNNDTAKSSNDKVFSSMAVTLKRALGARPKQPPPREIPQR
PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL
NQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNIINILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS
IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVRTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEATSKDGCPKPKDDEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPT
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEATNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP
HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
CDS 5050..6672
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="AFU55710.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTKGDGSTRGHKATVYTGSADFTPKLGSVQFATDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPNFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6672..7478
/codon_start=1
/product="minor structural protein"
/protein_id="AFU55711.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRIPTPARGSPSTSS
NVSTATSVYSNQTGSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWAGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7479..>7500
ORIGIN
1 ccgctgttgc taacagcaac aacgacaccg caaaatcttc aaatgacaaa gtgttttcta
61 gcatggctgt cactcttaaa cgagccctcg gggcgcggcc taaacagccc cccccgaggg
121 aaataccaca aagaccccca cgaccaccta ctccagaact ggtcaaaaag atccctcctc
181 ccccgcccaa cggagaggat gaagtagtgg tttcttatag tgccaaagat ggcgtttccg
241 gtttgcctga gctttccacc gtcaggcaac cggaagaaac caatacggcc ttcagtgtcc
301 ctccactcaa tcagagggag aatagggatg ctaaggaacc actgactgga acaattctgg
361 aaatgtggga tggagaaatc taccattatg gcctgtatgt tgagcgaggt cttgtgctgg
421 gtgtacacaa accaccagct gccattagcc tcgccaaggt cgaactaaca ccactctcct
481 tgttctggag acctgtgtac actcctcagt acctcatttc tccagacact ctcaagaaat
541 tacacggaga aacatttccc tacacagcct ttgacaacaa ttgctatgcc ttttgttgct
601 gggtcctgga tctaaacgac tcgtggctga gtaggagaat gatccagaga acaactggct
661 tcttcagacc ctaccaagat tggaatagga aacccctccc cactatggat gattccaaat
721 taaagaaggt agctaacata ttcctgtgcg ccctgtcttc gctattcacc aggcccataa
781 aagacataat aggaaagtta aggcctctca acatcatcaa catcctggct tcatgtgatt
841 ggactttcgc aggcatagtg gagtccttga tactcttggc agagctcttt ggagtcttct
901 ggacaccccc agatgtgtct gcgatgattg cccccttact cggtgatttc gagttacaag
961 gacctgagga ccttgtagtg gagctcgtcc ctgtagtaat gggggggatt ggtttggtgc
1021 taggattcac caaagagaag attggaaaaa tgttgtcatc tgctgcatcc accttgagag
1081 cttgtaaaga ccttggtgca tatgggctag agatcctaaa gttagtcatg aagtggttct
1141 tcccgaagaa agaggaagcg aatgaactgg ctatggtgag atccatcgag gacgcagtac
1201 tggaccttga ggcgattgaa aacaaccata tgaccacctt gctcaaagac aaagacagcc
1261 tggcaaccta catgagaacc cttgacctcg aggaagagaa agccagaaaa ctctcaacca
1321 agtctgcttc acctgacatc gtgggcacaa tcaacgccct tttggcgaga atcgccgctg
1381 cacgttccct ggtgcaccga gcgaaggagg agctttccag cagaccaaga cctgtagtct
1441 tgatgatatc aggcaggcca ggaataggga agacccacct tgctagggaa gtggctaaga
1501 gaatcgcagc atccctcaca ggagaccagc gtgtaggcct catcccacgc aatggcgtcg
1561 atcactggga tgcgtacaag ggggagaggg tcgtcctatg ggacgactat ggaatgagca
1621 atcccatcca cgacgccctc aggctgcaag aactcgctga cacttgcccc ctcactctaa
1681 actgtgacag gattgagaat aaaggaaagg tctttgacag cgatgtcatc attatcacta
1741 ctaatctggc caacccagca ccactggact atgtcaactt tgaagcgtgc tcgaggcgca
1801 tcgatttcct cgtgtatgca gaagcccctg aggtcgaaaa ggcgaagcgc gactttccgg
1861 gccaacctga catgtggaaa aacgctttta gttctgactt ctcacacata aaattggcac
1921 tggctccaca aggtggcttt gataagaacg ggaacacccc acacgggaag ggcgtcatga
1981 agactctcac cactggctcc ctcattgccc gggcatcagg gctgctccat gagagattgg
2041 atgagtttga actacagggc ccagctctta ccaccttcaa ctttgaccgc aacaaagtgc
2101 ttgccttcag gcagcttgct gctgaaaaca aatatgggtt gatggacaca atgaaagttg
2161 ggaggcagct caaggatgtc aaaaccatgc cagaacttaa acaagcactc aagaatatct
2221 caatcaagaa gtgccagatt gtgtacagtg gttgcaccta cacacttgag tctgatggca
2281 agggcaatgt gaaagttgac agagttcaga gtacctccgt tcggaccaac aatgagttgg
2341 ctggcgccct gcaccatcta aggtgcgcca gaatcaggta ctatgtcaag tgtgttcagg
2401 aggctctgta ttctatcatc cagattgctg gggctgcatt tgtcaccacg cgcatcatca
2461 agcgtgtgaa cattcaagac ttatggtcca agccacaagt ggaaaacaca gaagaggcta
2521 ccagcaagga cgggtgccca aaacccaaag atgatgagga gttcgtcatt tcatctgacg
2581 acattaaaac tgagggtaag aaagggaaga acaagactgg ccgtggcaag aagcacacag
2641 ccttctcaag taaaggtctc agtgatgaag agtatgatga gtacaagaga attagagagg
2701 aaagaaatgg caagtactcc atagaagagt accttcagga cagggacaaa tactatgagg
2761 aggtggccat tgccagggcg accgaggaag acttctgtga agaggaggag gccaagatcc
2821 ggcaaaggat cttcagacca acaaggaaac agcgcaagga agaaagagcc tccctcggtt
2881 tagtcacagg ttctgaaatt aggaaaagaa atccagaaga cttcaaaccc aaagggaaac
2941 tatgggctga cgatgacaga agtgtggact acaatgaaaa actcaatttt gaggccccac
3001 caagcatctg gtcaaggata gtcaactttg gctcaggttg gggcttctgg gtctccccca
3061 gcctgttcat aacatcaacc cacgtcatac cccagggcgc aaaggagttc tttggagtcc
3121 ccatcaaaca aattcaggtg cacaagtcag gcgaattctg tcgcttgagg ttcccaaaac
3181 caatcaggac tgatgtgact ggcatgatct tggaagaagg tgcgcccgaa ggcaccgtgg
3241 tcacactact catcaaaagg cctactggag aactcatgcc cctagcagct agaatgggga
3301 cccatgcaac catgaaaatt caagggcgca ctgttggagg tcagatgggc atgcttctga
3361 caggatccaa cgccaaaagc atggatctag gcaccacacc aggtgattgc ggctgtccct
3421 acatctacaa gagaggaaac 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 aaagacccca gagtcaaggg tggcccctcg ttgcagcaag
3721 tcatgaggga ccagctgaaa ccatttacag agcctagggg taagccacca aagccaagtg
3781 tgttagaagc tgccaagaaa accatcatca atgtccttga acagacaatt gacccacctg
3841 agaagtggtc gttcgcacaa gcttgcgcat cccttgacaa gaccacttct agcggccatc
3901 cgcaccacat gcggaaaaac gactgctgga acggggaatc cttcacaggc aagctggcag
3961 accaggcttc caaggccaac ctgatgtttg aagaagggaa gaacatgacc ccagtctaca
4021 caggtgcact taaggatgaa ttagtcaaaa ctgacaaaat ttatggtaag atcaagaaga
4081 ggcttctctg gggctcggat ttagcaacca tgatccggtg tgctcgagca ttcggaggcc
4141 tgatggatga actcaaagca cactgcgtca cacttcctgt cagagttggt atgaatatga
4201 atgaggatgg ccccatcatc ttcgagaagc actccaggta cagataccac tatgatgctg
4261 attactctcg atgggattca acacaacaga gagccgtgct ggcagctgct ctagaaatca
4321 tggttaaatt ctcctcagaa ccacatttgg ctcaggttgt agcagaagac cttctttctc
4381 ctagcgtggt ggatgtgggt gacttcacaa tatcaatcaa cgagggtctt ccctctgggg
4441 tgccctgcac ctcccaatgg aactccatcg cccactggct tctcactctc tgtgcactct
4501 ccgaagccac aaatttgtcc ccagacatca tacaggctaa ttctctcttc tccttctatg
4561 gtgatgatga aattgttagt acagacataa aattagaccc agagaagttg acagcaaagc
4621 ttaaggaata tgggttgaaa ccaacccgcc ctgacaaaac tgaaggacct cttgttattt
4681 ctgaagactt agacggtttg actttcctgc ggagaactgt gacccgcgac ccagctggtt
4741 ggtttggaaa actggagcag agctcaatac tcaggcaaat gtactggact aggggcccca
4801 atcatgaaga cccatctgaa tcaatgatcc cacactctca aagacccata caattgatgt
4861 ccttactagg agaggccgca ctccacggcc caacattcta cagtaaaatc agcaaattag
4921 tcattgcaga gctaaaagaa ggtggcatgg atttttacgt gcccaggcaa gagccaatgt
4981 tcagatggat gagattctcg gatctgagca cgtgggaggg cgatcgcaat ctggctccca
5041 gttttgtgaa tgaagatggc gtcgaatgac gccaacccat ctgatgggtc cgcagccaac
5101 ctcgtcccag aggtcaacaa tgaggttatg gctttggagc ccgttgttgg tgccgccatt
5161 gcggcgcctg tagcgggcca acaaaatgta attgacccct ggattagaaa taattttgtg
5221 caagcccctg gtggagagtt cacagtatcc cctagaaacg ctccaggtga aatactatgg
5281 agcgcgccct taggccctga tttgaatccc tacctatctc atttggccag aatgtataat
5341 ggttatgcag gtggttttga agtgcaggtg atcctcgcgg ggaacgcgtt caccgccgga
5401 aaaattatat ttgcagcagt cccaccaaat tttccaactg aaggcttgag tcccagccag
5461 gtcactatgt tcccccacat aatagtagat gttaggcaat tggaacctgt gttgatcccc
5521 ttacctgatg ttaggaataa cttctatcac tataatcagt caaatgattc taccattaaa
5581 ttgatagcaa tgctgtatac accacttagg gccaataatg ctggggatga tgtcttcaca
5641 gtctcttgtc gagtcctcac gaggccatcc cctgattttg actttatatt cctggtgcca
5701 cctacagttg agtcaagaac taagccattt actgtcccaa tcttaactgt tgaagaaatg
5761 accaattcaa gattccccat tcctttggaa aaattgttca cgggtcccag cagtgccttt
5821 gttgttcaac cacaaaatgg cagatgcacg actgatggcg tgctcttagg caccacccaa
5881 ctgtctcctg tcaacatttg caccttcaga ggggacgtca cccacattgc gggttctcgt
5941 aattacacaa tgaatttggc ctctctaaat tggaacaatt atgacccaac agaggaaatt
6001 ccagcccctc tgggaactcc agatttcgtg ggaaagatcc aaggtgtgct cactcaaacc
6061 acaaagggag atggctcgac ccggggccat aaagctacag tttacactgg gagtgccgac
6121 ttcactccaa agctgggcag tgttcaattt gctactgata cagaaaatga ttttgaaact
6181 caccaaaaca caaaattcac cccagtcggt gtcatccagg atggtagcac cacccatcga
6241 aatgaacccc aacaatgggt gctcccaagt tattcaggta gaaatgtcca taatgtacac
6301 ctagcccctg ctgtagcccc caattttccg ggtgaacaac ttcttttctt caggtccact
6361 atgcccggat gcagcggata tcccaacatg gatttggatt gtctactccc ccaggagtgg
6421 gtgcagcact tctaccaaga ggcagctcca gcacaatctg atgtggctct attgagattt
6481 gtgaatccag acacgggtag ggtcctgttt gagtgcaaac ttcataaatc aggctatgtc
6541 acagtggccc acaccggcca acatgatttg gtcatccccc ccaatggcta ttttaggttt
6601 gattcctggg ttaatcaatt ctatacactt gcccccatgg gaaatggaac ggggcgtaga
6661 cgtgctttat aatggctgga gctttctttg ctggattggc atctgatgtc cttagctctg
6721 gacttggttc cctaatcaat gctggggctg gggctatcaa ccaaaagatt gattttgaaa
6781 ataatagaaa attgcagcaa gcttccttcc agtttagcag taatctacaa caggcttcct
6841 ttcaacatga taaagagatg ctccaagcac aaattgaggc cactaaaaag ttgcaacagg
6901 aaatgatgaa agtcaaacag gcaatgctct tagaaggtgg attctctgaa acagatgcag
6961 cccgtggagc aatcaacgcc cccatgacaa aggctttgga ctggagcgga acaaggtact
7021 gggcccctga tgctaggact acaacataca atgcaggccg cttctccacc cctcaacctt
7081 cgggggcact gccaggaaga atcaatccca ggattcctac ccccgctcgg ggctccccca
7141 gcacatcttc caatgtttcc actgctactt ctgtatattc aaatcaaact ggttcaacga
7201 gacttggttc tacagctggt tctggcacca atgtctcgag tctcccgtca actgcaagga
7261 ctaggagttg ggttgaggat caaaacagaa atttgtcacc tttcatgagg ggggctcaca
7321 acatatcgtt tgtcacccca ccatctagca gatcctccag ccaaggcaca gtctcaaccg
7381 tgcctaaaga agttttggac tcctgggctg gcgctttcaa cacgcgcagg cagcctctct
7441 tcgctcacat tcgtaggcga ggggagtcac gggtgtaatg tgaaaagaca aaattgatta
//