Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| JX445159 | GII.4 Den Haag | |
|
|---|---|---|---|
| GII.P4 Den Haag |
ORF1: 1..5068
ORF2: 5049..6671
ORF3: 6671..7477
LOCUS JX445159 7488 bp RNA linear VRL 10-OCT-2012
DEFINITION Norovirus Hu/GII.4/AlbertaEI009/2008/CA non-structural polyprotein
gene, partial cds; and major capsid protein and minor structural
protein genes, complete cds.
ACCESSION JX445159
VERSION JX445159.1
KEYWORDS .
SOURCE Norovirus Hu/GII.4/AlbertaEI009/2008/CA
ORGANISM Norovirus Hu/GII.4/AlbertaEI009/2008/CA
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7488)
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..7488
/organism="Norovirus Hu/GII.4/AlbertaEI009/2008/CA"
/mol_type="genomic RNA"
/strain="Hu/GII.4/AlbertaEI009/2008/CA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:1238268"
/geo_loc_name="Canada"
/collection_date="Jan-2008"
/note="genotype: GII.4"
CDS <1..5068
/codon_start=2
/product="non-structural polyprotein"
/protein_id="AFU55706.1"
/translation="AVANSNNDTAKSSSDKMFSSMAVTFKRALGARPKQPPPREIPQR
PPRPPTPELVKKIPPPPPNGEDEVVVSYSAKDGVSGLPELSTVRQPEETNTAFSVPPL
NQRENRDAKEPLAGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPLSL
FWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTT
GFFRPYQDWNRKPLPTMDDSKLKKVANIFLCTLSSLFTRPIKDIIGKLRPLNIINILA
SCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDFELQGPEDLVVELVPVVMG
GIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMV
RSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTI
NALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASLTGD
QRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIEN
KGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDM
WKNAFSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEF
ELQGPALTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVKTMPELKQALKNIS
IKKCQIVYSGCTYTLESDGKGNVKVDRVQSTSVQTNNELAGALHHLRCARIRYYVKCV
QEALYSIIQIAGAAFVTTRIIKRVNIQDLWSKPQVENTEEVTNKDGCPKPKDNEEFVI
SSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDR
DKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPE
DFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIP
QGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRST
GELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGN
DYVVIGVHTAAARGGNTVICATQGGEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKT
KFWRSSTAPLPPGTYEPAYLGGKDPRVKDGPSLQQVMRDQLKPFTEPRGKPPKPSVLE
AAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLAD
QASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFG
GLMDELKAHCVTLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVLAAA
LEIMVKFSSEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAHWLL
TLCALSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDK
TEGPLVISEDLDGLTFLRRTVTRDPAGWFGKLEQSSILRQMYWTRGPNHEDPSESMIP
HSQRPIQLMSLLGEAALHGPTFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDL
STWEGDRNLAPSFVNEDGVE"
CDS 5049..6671
/note="VP1"
/codon_start=1
/product="major capsid protein"
/protein_id="AFU55707.1"
/translation="MKMASNDANPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDSTIKLIAMLYTPLRANNAGEDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFTVPILTVEEMTNSRFPIPLEKLFTGPSSAFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGSRNYTMNLASLNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTEGDGSTRGHKATVYTGSAPFTPKLGSVQFSTDTENDFETHQNTKFTPVGVIQDG
STTHRNEPQQWVLPSYSGRNVHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMDLD
CLLPQEWVQHFYQEAAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGTGRRRAL"
CDS 6671..7477
/codon_start=1
/product="minor structural protein"
/protein_id="AFU55708.1"
/translation="MAGAFFAGLASDVLSSGLGSLINAGAGAINQKIDFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAIN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGALPGRINPRTPTPARGSPNTSS
NASTATSIYSNQTVSTRLGSTAGSGTNVSSLPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSSRSSSQGTVSTVPKEVLDSWTGAFNTRRQPLFAHIRRRGESRV"
3'UTR 7478..>7488
ORIGIN
1 cgctgttgct aacagcaaca acgacaccgc aaaatcttca agtgacaaaa tgttttctag
61 catggctgtc acttttaaac gagccctcgg ggcgcggcct aaacagcccc ccccgaggga
121 aataccacaa agacccccac gaccacctac tccagaactg gtcaaaaaga tccctcctcc
181 cccgcccaac ggagaggatg aagtagtggt ttcttatagt gccaaagatg gcgtttccgg
241 tttacctgag ctttccaccg tcaggcaacc ggaagaaacc aatacggcct tcagtgtccc
301 tccactcaat cagagggaga atagggatgc taaggaacca ctggctggaa caattctgga
361 aatgtgggat ggagaaatct accattatgg cctgtatgtt gagcgaggtc ttgtgctggg
421 tgtgcacaaa ccaccagctg ccattagcct cgccaaggtc gaactaacac cactctcctt
481 gttctggaga cctgtgtaca ctcctcagta cctcatctct ccagacactc tcaagaaatt
541 acacggagaa acttttccct acacagcctt cgacaacaat tgctatgcct tttgttgctg
601 ggtcctggat ctaaacgact cgtggctgag taggagaatg atccagagaa caacaggctt
661 cttcagacca taccaagatt ggaataggaa acccctcccc actatggatg attccaaatt
721 aaagaaggta gctaacatat tcctgtgcac cctgtcttcg ctattcacca ggcccataaa
781 agacataata gggaagttaa ggcctctcaa catcatcaac atcctggctt catgtgattg
841 gactttcgca ggcatagtgg agtccttgat actcttggca gagctctttg gagtcttctg
901 gacaccccca gatgtgtctg cgatgattgc ccccttactc ggtgatttcg agttacaagg
961 acctgaggac cttgtagtgg agctcgtccc tgtagtaatg gggggaattg gtttggtgct
1021 aggattcacc aaagagaaga ttggaaaaat gttgtcatct gctgcatcta ccttgagagc
1081 ttgtaaagat cttggtgcat atgggctaga gattctaaag ttagtcatga agtggttctt
1141 cccgaagaaa gaggaagcaa atgaactggc tatggtgaga tccatcgagg atgcagtact
1201 ggaccttgag gcaattgaaa acaaccatat gaccaccttg ctcaaagaca aagacagcct
1261 ggcaacctat atgagaaccc ttgacctcga ggaagagaaa gccagaaaac tctcaaccaa
1321 gtctgcttca cctgacatcg tgggcacaat caacgccctt ctggcgagaa tcgccgctgc
1381 acgctccctg gtgcaccgag cgaaggagga gctttccagc agaccaagac ctgtagtctt
1441 gatgatatca ggcagaccag gaatagggaa gacccacctt gctagggaag tggctaagag
1501 aatcgcagcc tccctcacag gagaccagcg tgtaggcctc atcccacgca atggcgtcga
1561 tcactgggat gcgtacaagg gggagagggt cgtcctatgg gacgactatg gaatgagcaa
1621 tcccatccac gacgccctaa ggctgcaaga actcgctgac acttgccccc tcactctaaa
1681 ttgtgacagg attgagaata aaggaaaggt ctttgacagc gatgtcatca ttatcactac
1741 taacctggct aacccagcac cactggacta tgtcaacttt gaagcgtgct cgaggcgcat
1801 cgatttcctc gtgtatgcag aagcccccga ggtcgaaaag gcgaagcgcg acttcccggg
1861 ccaacctgac atgtggaaaa acgcttttag ttctgatttc tcacacataa aattggcact
1921 ggctccacaa ggtggctttg ataagaacgg gaacacccca cacggtaagg gcgtcatgaa
1981 gactctcacc actggctccc tcattgcccg ggcatcaggg ctgctccatg agagattgga
2041 tgagtttgaa ctacagggcc cagctcttac caccttcaac tttgaccgca acaaagtgct
2101 tgccttcagg cagcttgctg ctgaaaacaa atacgggttg atggacacaa tgaaagttgg
2161 gaggcagctc aaggatgtca aaaccatgcc agaacttaaa caagcactca agaatatctc
2221 aatcaagaag tgccagattg tgtatagtgg ttgcacctac acacttgagt ctgatggcaa
2281 gggcaatgtg aaagttgaca gagttcagag cacctccgtt cagaccaaca atgagctggc
2341 tggcgccctg caccatctaa ggtgcgccag aatcaggtac tatgtcaagt gtgttcagga
2401 agccctgtat tctatcatcc agattgctgg ggctgcattt gtcaccacgc gcatcatcaa
2461 gcgtgtgaac attcaagact tatggtccaa gccacaagtg gaaaacacag aggaggttac
2521 caacaaggac gggtgcccaa aacccaaaga taatgaggag ttcgtcattt catctgacga
2581 cattaaaact gagggtaaga aagggaagaa caagactggc cgtggcaaga agcacacagc
2641 cttctcaagt aaaggtctca gtgatgaaga gtatgatgag tacaagagaa ttagagagga
2701 aaggaatggc aagtactcca tagaagagta ccttcaggac agggacaaat actatgagga
2761 ggtggccatt gccagggcga ccgaggaaga tttctgtgaa gaggaggagg ccaagatccg
2821 gcaaaggatc ttcagaccaa caaggaaaca acgcaaggaa gaaagagctt ctctcggttt
2881 agtcacaggt tctgaaatta ggaaaaggaa cccagaagac ttcaagccta aggggaaact
2941 atgggctgac gatgacagaa gtgtggacta caatgaaaaa ctcagctttg aggccccacc
3001 aagcatctgg tcaaggatag tcaactttgg ctcaggttgg ggcttctggg tctcccccag
3061 cctgttcata acatcaaccc acgtcatacc ccagggcgca aaggagttct ttggagtccc
3121 catcaaacaa attcaggtac acaagtcagg cgaattctgt cgcttgaggt tcccaaaacc
3181 aatcaggact gatgtgactg gcatgatctt ggaagaaggt gcgcccgaag gcaccgtggt
3241 cacactactc atcaaaaggt ctactggaga actcatgccc ctagcagcta gaatggggac
3301 ccatgcaacc atgaaaattc aagggcgcac tgttggaggt cagatgggca tgcttctgac
3361 gggatccaac gccaaaagca tggatctagg caccacacca ggtgattgcg gctgtcccta
3421 catctacaag agaggaaatg 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 aggaccccag agtcaaggat ggcccctcgt tgcagcaagt
3721 catgagggac cagctgaaac cattcacaga gcctaggggt aagccaccaa agccaagcgt
3781 gttagaagct gccaagaaaa ccatcatcaa tgtccttgaa caaacaattg acccacctga
3841 gaagtggtcg ttcgcacaag cttgcgcgtc tcttgacaag actacttcta gcggccatcc
3901 gcaccacatg cggaaaaacg actgctggaa cggggaatcc ttcacaggca agctggcaga
3961 ccaggcttcc aaggccaacc tgatgtttga agaagggaag aacatgaccc cagtctacac
4021 aggtgcactt aaggatgaat tagtcaaaac tgacaaaatt tatggtaaga tcaagaagag
4081 gcttctctgg ggctcggatt tagcaaccat gatccggtgt gctcgagcat tcggaggcct
4141 aatggatgaa ctcaaagcac actgtgtcac acttcctatc agagttggta tgaatatgaa
4201 tgaggatggc cccatcatct tcgagaagca ttccaggtac agataccact atgatgctga
4261 ttactctcgg tgggattcaa cacaacagag agccgtgctg gcagctgctc tagaaatcat
4321 ggttaaattc tcctcagaac cacatttggc tcaggtagta gcagaagacc ttctttctcc
4381 tagcgtggtg gatgtgggtg acttcacaat atcaatcaac gagggtcttc cctctggggt
4441 gccctgcacc tcccaatgga actccatcgc ccactggctt ctcactctct gtgcactctc
4501 cgaagttacg aatttgtccc cagacatcat acaggctaat tctctcttct ccttttatgg
4561 tgatgatgaa attgttagta cagacataaa attagaccca gagaagttga cagcaaagct
4621 taaggaatac gggttgaaac caacccgccc tgataaaact gaaggacctc ttgttatttc
4681 tgaagactta gatggtttga ctttcctgcg gagaactgtg acccgcgacc cagctggttg
4741 gtttggaaaa ctggagcaga gctcaatact caggcaaatg tactggacta ggggccccaa
4801 ccatgaagat ccatctgaat caatgattcc acactctcaa agacccatac aattgatgtc
4861 cttactggga gaggccgcac tccacggccc aacattctac agtaaaatca gcaaattagt
4921 cattgcagag ctaaaagaag gtggtatgga tttttacgtg cccaggcaag agccaatgtt
4981 cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc tggctcccag
5041 ttttgtgaat gaagatggcg tcgaatgacg ccaacccatc cgatgggtcc gcagccaacc
5101 tcgtcccaga ggtcaacaat gaggttatgg ctttggagcc cgttgtcggt gccgctattg
5161 cggcgcctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat aattttgtac
5221 aagcccctgg tggagagttc acagtatccc ctagaaacgc tccaggcgaa atactatgga
5281 gtgcgccctt aggccctgat ttgaatccct acctatctca tttggccaga atgtataatg
5341 gttatgcagg tggttttgaa gtgcaggtga tcctcgcggg gaacgcgttc accgccggaa
5401 aaattatatt tgcagcagtc ccaccaaatt ttccaactga aggcttgagt cccagccagg
5461 tcactatgtt cccccacata atagtggatg ttaggcaatt ggaacctgtg ttgatcccct
5521 tacctgatgt taggaataac ttctatcact ataatcagtc aaatgattct actattaaat
5581 tgatagcaat gctgtataca ccacttaggg ctaataatgc tggggaagat gtcttcacag
5641 tctcttgtcg ggttctcacg aggccatccc ctgattttga ttttatattt ttggtgccac
5701 ctacagttga gtcaagaact aaaccattta ctgtcccaat cttaactgtt gaagaaatga
5761 ccaattcaag attccccatt cctttggaaa aattgttcac gggtcccagc agtgcctttg
5821 ttgttcaacc acaaaatggc agatgcacga ctgatggcgt gctcttaggc accacccaac
5881 tgtctcctgt caacatctgc accttcagag gggatgtcac ccacattgca ggttctcgta
5941 attacacaat gaatttggct tctctaaatt ggaacaatta tgacccaaca gaagaaattc
6001 cagcccctct aggaactcca gatttcgtgg ggaagatcca aggtgtgctc actcaaacca
6061 cagagggaga tggctcgacc cgtggccata aagctacagt ttacactggg agtgcccctt
6121 ttactccaaa gctgggcagt gttcaattca gtactgatac agaaaatgat tttgaaactc
6181 accaaaacac aaaattcacc ccagtcggtg tcatccagga tggtagcacc acccaccgaa
6241 atgaacccca acaatgggtg ctcccaagtt attcaggtag aaatgtccat aatgtacacc
6301 tagcccctgc tgtagccccc acttttccgg gtgaacaact tcttttcttt aggtccacta
6361 tgcccggatg cagcgggtat cccaacatgg atttggattg cctactcccc caggagtggg
6421 tgcagcactt ctaccaagag gcagctccag cacaatctga tgtggctcta ttgagatttg
6481 tgaatccaga cacgggtagg gtcctgtttg agtgcaaact tcataaatca ggctatgtca
6541 cagtggctca caccggccag catgatttgg tcatcccccc caatggttat tttaggtttg
6601 attcctgggt taatcaattc tacacacttg cccccatggg aaatggaacg gggcgtagac
6661 gtgctttata atggctggag ctttctttgc tggattggca tctgatgtcc ttagctctgg
6721 acttggttcc ctaatcaatg ctggggctgg ggctatcaac caaaagattg attttgaaaa
6781 taacagaaaa ttgcagcaag cttccttcca gtttagcagt aatctacaac aggcttcctt
6841 tcaacatgat aaagagatgc tccaagcaca aattgaggcc actaaaaagt tgcaacagga
6901 aatgatgaaa gtcaaacagg caatgctctt agaaggtgga ttctctgaaa cagatgcagc
6961 ccgtggggca atcaacgccc ctatgacaaa ggctttggac tggagcggaa caaggtactg
7021 ggcccctgat gctaggacta caacatacaa tgcaggccgt ttttccaccc ctcaaccttc
7081 gggggcactg ccaggaagaa tcaatcccag gactcctacc cccgctcggg gctcccccaa
7141 cacatcttct aatgcttcta ctgctacttc tatatattca aatcaaactg tttcaacgag
7201 acttggttct acagctggtt ctggcaccaa tgtctcgagt ctcccgtcaa ctgcaaggac
7261 taggagttgg gttgaggatc aaaacagaaa tttgtcacct tttatgaggg gggctcacaa
7321 catatcgttt gtcaccccac catctagcag atcctctagc caaggcacag tctcaaccgt
7381 gcctaaagaa gttttggact cctggactgg cgctttcaac acgcgcaggc agcctctctt
7441 cgctcacatt cgtaggcgag gggagtcacg ggtgtaatgt gaaaagac
//