Typing tool
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Typing tool
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Complete norovirus genomes
| EF202568 | GII.4 Hunter | |
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| GII.P4 Apeldoorn |
ORF1: 1..5078
ORF2: 5059..6681
ORF3: 6681..7360
LOCUS EF202568 7360 bp RNA linear VRL 23-JUL-2016
DEFINITION Norovirus Hu/GII/Toronto/SK/2005/CAN nonstructural polyprotein
gene, partial cds; capsid protein gene, complete cds; and unknown
gene.
ACCESSION EF202568
VERSION EF202568.1
KEYWORDS .
SOURCE Norovirus Hu/GII/Toronto/SK/2005/CAN
ORGANISM Norovirus Hu/GII/Toronto/SK/2005/CAN
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7360)
AUTHORS Kostela,J., Ayers,M., Nishikawa,J., McIntyre,L., Petric,M. and
Tellier,R.
TITLE Amplification by long RT-PCR of near full-length norovirus genomes
JOURNAL J. Virol. Methods 149 (2), 226-230 (2008)
PUBMED 18355931
REFERENCE 2 (bases 1 to 7360)
AUTHORS Kostela,J. and Tellier,R.
TITLE Direct Submission
JOURNAL Submitted (29-DEC-2006) Paediatric Laboratory Medicine, Hospital
for Sick Children, 555 University Ave, Toronto, ON M5G 1X8, Canada
FEATURES Location/Qualifiers
source 1..7360
/organism="Norovirus Hu/GII/Toronto/SK/2005/CAN"
/mol_type="genomic RNA"
/isolate="SK2005"
/isolation_source="stool sample"
/db_xref="taxon:440501"
/geo_loc_name="Canada: Toronto"
/collection_date="2005"
/note="genotype: II"
CDS <1..5078
/note="ORF 1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="ABQ12783.1"
/translation="SAAAVANSNNDTAKSSSDGVLSSMAVTFKRALGARPKQPPPREI
PQRPPRPPTPELVKNIPPPPPNGEDEIVVSYSVKDGISGLPDLSTVRQPEESNTAFSV
PPLNQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLARVELTP
LSLFWRPVYTPQYLISPDALKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQDWNRKPLPTMDDSKLKKVANIFLCALSSLFTRPIKDIIGKLRPLNILN
ILASCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPV
VMGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANEL
AIVRSIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINALLARIAAARSLVHRAKEELSSRPRPVVLMISGRPGIGKTHLAREVAKRIAASL
TGDQRVGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDR
IENKGKVFDSDVIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQ
PDMWKNAFSSDFSHIKLTLAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERL
DEFELQGPTLTTFNFDRNKVLAFRQLAAENKYGLMDTMKVGRQLKDVRTMPELKQALK
NISIKKCQIVHNGCTYTLESDGKGNVKVDRVQSASVQTNNELTGALHHLRCARIRYYV
RCVQEALYSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVENTEETTSKDGCPKPKDDEE
FVISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKR
NPDDFKPKGKLWADDDRSVDYNEKLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTH
VIPQGAKEFFGVPIKQIQVHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIK
RSTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDYVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGSAPKLS
TKTKFWRSSTASLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPS
VLEAAKKTIINVLEQTIDPPEKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGK
LADQASKANLMFEEGKNMTPVYTAALKDELVKTDKIYGKIKKRLLWGSDLATMIRCAR
AFGGLMDELKAHCVTLPIRVGMNMNEDGPIIFERHSRYTYHYDADYSRWDSTQQRAVL
AAALEIMVKFSPEPHLAQVVAEDLLSPSVVDVGDFTISINEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTNLSPDTIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLREYGLKPTR
PDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGSNHEDPSET
MIPHSQRPIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
CDS 5059..6681
/codon_start=1
/product="capsid protein"
/protein_id="ABQ12784.1"
/translation="MKMASNDATPSDGSAANLVPEVNNEVMALEPVVGAAIAAPVAGQ
QNVIDPWIRNNFVQAPGGEFTVSPRNAPGEILWSAPLGPDLNPYLSHLARMYNGYAGG
FEVQVILAGNAFTAGKIIFAAVPPNFPTEGLSPSQVTMFPHIIVDVRQLEPVLIPLPD
VRNNFYHYNQSNDPTIKLIAMLYTPLRANNAGDDVFTVSCRVLTRPSPDFDFIFLVPP
TVESRTKPFSVPILTVEEMTNSRFPIPLEKLFTGPSSSFVVQPQNGRCTTDGVLLGTT
QLSPVNICTFRGDVTHIAGTQNYTMNLASQNWNNYDPTEEIPAPLGTPDFVGKIQGVL
TQTTRRDGSTRGHKATVSTGSVHFTPKLGSVQFSTDTSNDFETGQNTRFTPVGVVQDG
STTPQNEPQQWVLPDYSGRDSHNVHLAPAVAPTFPGEQLLFFRSTMPGCSGYPNMNLD
CLLPQEWVQHFYQESAPAQSDVALLRFVNPDTGRVLFECKLHKSGYVTVAHTGQHDLV
IPPNGYFRFDSWVNQFYTLAPMGNGAGRRRAL"
CDS 6681..>7360
/note="ORF 3"
/codon_start=1
/product="unknown"
/protein_id="ABQ12785.1"
/translation="MAGAFFAGLASDVLGSGLGSLINAGAGAINQKIEFENNRKLQQA
SFQFSSNLQQASFQHDKEMLQAQIEATKKLQQEMMKVKQAMLLEGGFSETDAARGAVN
APMTKALDWSGTRYWAPDARTTTYNAGRFSTPQPSGASPGRTNLRATVPARGSSSTPS
NASTATSVYSNQTASTRLGSTAGSGTSVSSPPSTARTRSWVEDQNRNLSPFMRGAHNI
SFVTPPSS"
ORIGIN
1 cttccgctgc cgctgttgct aacagcaaca acgacaccgc aaaatcttca agtgacggag
61 tgctttctag catggctgtc acttttaaac gagccctcgg ggcgcggcct aagcagcctc
121 ccccgaggga aataccacaa agacccccac gaccacctac tccagaactg gtcaaaaaca
181 tcccccctcc cccgcccaac ggagaggatg aaatagtggt ttcttatagt gtcaaagatg
241 gtatttccgg tttgcctgat ctttccaccg tcaggcaacc ggaagaatct aacacggcct
301 tcagtgtccc tccactcaat cagagggaga atagagatgc taaggagcca ctgactggaa
361 caattctgga aatgtgggat ggagaaatct accattatgg cctgtatgtg gagcgaggtc
421 ttgtactagg tgtgcacaaa ccaccagctg ccattagcct cgctagggtc gaactaacac
481 cactctccct gttctggaga cctgtgtata ctcctcagta cctcatctct ccagacgctc
541 tcaagaaatt acacggagag acgttcccct acacagcctt tgacaacaat tgctatgcct
601 tttgttgctg ggtcctggac ctaaacgact cgtggctgag taggagaatg atccagagaa
661 caactggctt cttcaggccc taccaagact ggaataggaa acccctcccc actatggatg
721 actccaagtt aaagaaggta gctaacatat tcctgtgtgc tctgtcttcg ctattcacca
781 ggcccataaa agacataata gggaagctaa ggcctcttaa catcctcaac atcttggcct
841 catgtgattg gacttttgca ggcatagtgg agtccttgat actcttggca gaactctttg
901 gagttttctg gacaccccca gatgtgtctg cgatgattgc ccccttactc ggtgattacg
961 agctacaagg acctgaggac cttgcagtgg agctcgtccc tgtagtgatg gggggaattg
1021 gtttggtgct aggcttcacc aaagagaaga ttggaaaaat gttgtcatct gctgcatcca
1081 ccttgagagc ttgtaaagat cttggtgcat atgggctaga gatcctaaag ttggtcatga
1141 agtggttctt cccgaagaaa gaggaagcaa atgaactggc tatagtgaga tccatcgagg
1201 atgcagtcct ggatctcgag gcaattgaaa acaaccatat gaccaccttg ctcaaagaca
1261 aagacagtct ggcaacctac atgagaaccc ttgaccttga ggaggagaaa gccaggaaac
1321 tctcaaccaa gtctgcttca cctgacatcg tgggcacaat caacgccctt ctggcgagaa
1381 tcgctgctgc acgttctctg gtgcatcgag cgaaggagga actttccagc agaccaagac
1441 ctgtagtgtt gatgatatca ggcagaccag gaatagggaa gacccacctt gctagggaag
1501 tggctaagag aatcgcggcc tcccttacag gagaccagcg tgtaggcctc gtcccacgca
1561 atggcgtcga ccattgggat gcgtacaagg gggagagggt cgtcctatgg gacgactatg
1621 gaatgagcaa ccccatccac gatgccctca ggttgcaaga actcgctgac acttgccccc
1681 tcaccctaaa ctgtgacagg attgagaata aaggaaaggt ctttgacagc gatgtcatca
1741 ttatcaccac taatctggct aacccagcac cactggacta tgtcaacttt gaagcatgct
1801 cgaggcgcat cgacttcctc gtgtatgcag aagcccctga ggtcgaaaag gcgaagcgtg
1861 acttcccagg ccaacccgac atgtggaaga acgccttcag ttctgatttc tcacacataa
1921 aactaacatt ggctccacag ggtggcttcg acaagaacgg gaacacccca cacggaaagg
1981 gcgtcatgaa gactctcacc actggctccc ttattgcccg ggcatcaggg ctactccatg
2041 agaggctaga tgaatttgaa ctacaaggcc caactctcac caccttcaac tttgatcgca
2101 acaaagtgct tgcctttaga caacttgctg ctgaaaacaa atatgggttg atggacacaa
2161 tgaaagttgg gaggcagctc aaggatgtca gaacaatgcc agagcttaaa caagcactca
2221 agaatatctc aatcaagaag tgccagatag tacataatgg ttgtacctac acacttgagt
2281 ctgatggcaa gggcaatgtg aaagttgaca gagttcaaag cgcctccgtg cagaccaaca
2341 atgagctgac tggcgccctg caccatctaa ggtgcgctag aataagatac tatgtcaggt
2401 gtgtccagga ggccctgtat tccatcatcc agattgctgg ggctgcattt gtcaccacgc
2461 gcatcgtcaa gcgcatgaac atacaagacc tatggtccaa gccacaagtg gaaaacacag
2521 aggagactac cagcaaggac gggtgtccaa aacccaaaga tgacgaggag ttcgtcattt
2581 catccgatga catcaaaact gagggtaaga aagggaagaa caagactggc cgcggcaaga
2641 agcacacagc cttctcaagc aaaggcctca gtgatgaaga gtacgatgag tacaagagga
2701 ttagagaaga aaggaatggc aagtactcca tagaagagta ccttcaggac agggacaaat
2761 actatgagga ggtggccatt gccagggcga ccgaggagga cttctgtgaa gaggaggagg
2821 ccaagatccg gcaaaggatc ttcaggccaa caaggaaaca acgcaaggag gaaagagctt
2881 ctctcggttt agttacaggt tctgaaatta ggaaaagaaa tccagatgat ttcaaaccca
2941 aggggaagct gtgggctgac gatgacagaa gtgtggacta caatgagaaa ctcagttttg
3001 aagccccacc aagcatctgg tcgaggatag tcaactttgg ttcaggttgg gggttctggg
3061 tctcccccag tctgttcata acatcaaccc atgtcatacc ccagggcgca aaggagttct
3121 ttggagtccc catcaaacaa attcaggtac ataagtcagg cgaattctgt cgcttgagat
3181 tcccaaaacc aatcaggact gatgtgacgg gcatgatctt agaagaaggt gcacccgagg
3241 gcaccgtggt cacactactc atcaaaaggt ccactggaga actcatgccc ctagcagcta
3301 ggatggggac ccatgcaacc atgaaaatcc aaggacgcac tgttggaggt caaatgggca
3361 tgcttctgac aggatccaac gccaaaagca tggacctggg taccacacca ggtgattgtg
3421 gctgccccta catctacaag agaggaaatg actatgtagt cattggagtc cacacggctg
3481 ccgctcgtgg gggaaacact gtcatatgtg ccacccaggg gagtgaggga gaggctacac
3541 ttgaaggtgg tgacaataaa gggacatact gtggtgcgcc aatcctaggt ccagggagtg
3601 ccccaaaact tagcaccaag accaaattct ggagatcgtc cacagcatca ctcccacctg
3661 gcacctatga accagcctat cttggtggca aggaccccag agtcaagggt ggcccttcac
3721 tgcagcaagt catgagggat cagctgaagc catttacaga gcccaggggc aagccaccaa
3781 agccaagtgt gttggaagct gccaagaaaa ccatcatcaa tgtccttgag caaacaattg
3841 atccacctga gaaatggtca ttcgcacaag cttgcgcgtc ccttgacaag accacttcca
3901 gtggccatcc gcatcacatg cggaaaaacg actgctggaa cggggagtct ttcacaggca
3961 agctggcaga ccaagcttcc aaggccaacc tgatgtttga agaagggaag aacatgaccc
4021 cagtctacac agctgcgctt aaggatgaat tagttaaaac tgacaaaatt tatggtaaga
4081 tcaagaagag gcttctttgg ggctcggatt tggcgaccat gattcggtgt gctcgagcat
4141 tcggaggcct aatggatgaa ctcaaagcgc actgtgtcac acttcccatt agagttggta
4201 tgaatatgaa tgaggatggc cccatcatct tcgagaggca ttccaggtac acataccact
4261 atgatgctga ttactctcga tgggattcaa cacaacagag agccgtgttg gcagcagctc
4321 tagaaatcat ggttaaattc tccccagaac cacatttggc tcaggtagtc gcagaagacc
4381 ttctttctcc tagcgtggtg gacgtgggtg acttcacaat atcaatcaac gagggtcttc
4441 cctctggggt gccctgcacc tcccaatgga actccatcgc ccactggctt ctcactctct
4501 gtgcgctctc tgaagttaca aacttgtctc ctgacaccat acaggctaac tccctcttct
4561 ctttttatgg tgatgatgaa attgttagca cagacataaa attggaccca gagaagttga
4621 cagcaaagct cagggaatat gggttaaaac caacccgccc tgacaaaact gaaggacccc
4681 ttgtcatctc tgaagacttg aatggcctga ctttcctgcg aagaactgtg acccgcgacc
4741 cagctggttg gtttggaaaa ttggatcaga gttcaatact caggcaaatg tactggacta
4801 ggggttccaa ccatgaagac ccatctgaaa caatgattcc acactcccaa agacccatac
4861 aattgatgtc cctactgggg gaggccgcac tccacggccc agcattctac agcaaaatca
4921 gcaagttagt cattgcagag ctaaaagaag gtggcatgga tttttacgtg cccagacaag
4981 agccaatgtt cagatggatg agattctcag atctgagcac gtgggagggc gatcgcaatc
5041 tggctcccag ttttgtgaat gaagatggcg tcgaatgacg ccaccccatc tgatgggtcc
5101 gcagccaacc tcgtcccaga ggtcaacaat gaggttatgg ctttggagcc cgttgttggt
5161 gccgcgattg cggcacctgt agcgggccaa caaaatgtaa ttgacccctg gattagaaat
5221 aattttgtac aagcccctgg tggagagttt acagtatccc ctagaaacgc tccaggtgaa
5281 atattatgga gcgcgccctt gggccctgat ttgaatccct acctttccca tttggccaga
5341 atgtacaatg gttatgcagg tggttttgaa gtgcaggtaa tcctcgcggg gaacgcgttc
5401 accgccggga aaatcatatt tgcagcagtc ccaccaaatt tcccaactga aggcttgagc
5461 cccagccagg tcactatgtt cccccatata atagtagatg ttaggcaact ggaacctgtg
5521 ttgattccct tgcctgatgt taggaacaat ttctatcatt acaatcaatc aaatgacccc
5581 accatcaaac tgatagcaat gctgtataca ccacttaggg ctaacaatgc tggggacgat
5641 gtcttcacag tctcttgtcg agttctcacg agaccatccc ccgattttga tttcatattt
5701 ttggtgccac ccacagttga gtcaagaact aaaccattct ctgtcccaat cttaactgtt
5761 gaggagatga ccaattcaag attccctatt cctttggaaa agttgttcac gggtcccagc
5821 agttcctttg ttgttcaacc acaaaatggc agatgcacga ctgatggcgt gctcttaggt
5881 actacccaac tgtctcccgt caacatctgt accttcagag gggatgtcac ccacattgca
5941 ggtactcaaa attacacaat gaatctggcc tcccaaaatt ggaacaatta tgacccaaca
6001 gaagaaatcc cagcccctct gggaacccca gattttgtag gaaagatcca aggcgtgctc
6061 acccaaacca caaggaggga tggctcgacc cgcggtcata aagccacagt gagcactgga
6121 agtgtccact ttactccaaa gctgggcagt gttcaattct ccactgatac aagcaatgac
6181 tttgaaaccg gccaaaacac gaggttcacc ccagtcggtg tcgtccagga tggtagtacc
6241 accccccaaa atgaacccca acagtgggtg ctcccagact attcaggtag agatagtcac
6301 aatgtacacc tagcccctgc tgtggccccc acttttccgg gtgagcaact tcttttcttt
6361 aggtccacta tgcccggatg cagcgggtat cccaacatga atttggattg cctactcccc
6421 caggagtggg tgcagcactt ctaccaagag tcagccccag cacaatctga tgtggcacta
6481 ctgagatttg tgaatccaga cacaggtagg gttctgtttg agtgcaagct tcataaatca
6541 ggctatgtaa cagtggccca cactggccaa catgatttgg ttatcccccc caatggctat
6601 tttagatttg attcctgggt caaccaattc tacacacttg cccccatggg aaatggagcg
6661 gggcgtagac gtgcattata atggctggag ctttctttgc tggattggca tctgatgtcc
6721 ttggctctgg acttggctct ctaatcaatg ctggggctgg ggccatcaac caaaaaattg
6781 agtttgaaaa taacagaaaa ttgcaacaag cttccttcca atttagcagc aacctacaac
6841 aggcttcctt tcaacatgat aaagagatgc tccaagcaca aattgaggcc accaaaaagt
6901 tgcaacagga aatgatgaaa gttaaacagg caatgctcct agagggtggg ttctctgaga
6961 cagatgcagc ccgtggggca gtcaacgccc ccatgacaaa ggctttggac tggagcggaa
7021 caaggtattg ggctcccgat gctaggacta caacatacaa tgcaggccgc ttttccaccc
7081 ctcaaccctc gggggcatcg ccaggaagaa ctaatctcag ggctactgtc cccgctcggg
7141 gctcctccag cacaccttct aatgcttcta ctgctacttc tgtgtactca aatcaaactg
7201 cttcaacgag acttggttct acagctggtt ctggtaccag tgtctcaagc cccccgtcaa
7261 ctgcaaggac taggagctgg gttgaggatc aaaacaggaa tttgtcacct ttcatgaggg
7321 gggcccacaa catatcgttt gtcaccccac catctagtag
//