Typing tool
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Typing tool
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Complete norovirus genomes
| MK648242 | GII.17 | |
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| GII.P17 |
ORF1: 3..5111
ORF2: 5092..6714
ORF3: 6714..7420
LOCUS MK648242 7420 bp RNA linear VRL 01-APR-2020
DEFINITION Norovirus GII isolate 0038 nonstructural polyprotein (ORF1) and VP1
(ORF2) genes, complete cds; and VP2 (ORF3) gene, partial cds.
ACCESSION MK648242
VERSION MK648242.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7420)
AUTHORS Majer,A., Mandes,R., Tyler,A.D., Grudeski,E., Booth,S.A. and
Booth,T.F.
TITLE MinION sequencing allows for rapid Norovirus genotyping from
clinical samples
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7420)
AUTHORS Majer,A., Mandes,R., Tyler,A.D., Grudeski,E., Booth,S.A. and
Booth,T.F.
TITLE Direct Submission
JOURNAL Submitted (18-MAR-2019) Viral Diseases Division, Public Health
Agency of Canada, 1015 Arlington Street, Winnipeg, MB R3E 3R2,
Canada
COMMENT ##Assembly-Data-START##
Sequencing Technology :: Sanger dideoxy sequencing
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7420
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="0038"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Canada"
/collection_date="Jan-2017"
/note="genotype: GII.P17_GII.17"
gene 3..5111
/gene="ORF1"
CDS 3..5111
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QBN20803.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR
SKQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVV
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDESEDR
GGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMYRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 3..1001
/gene="ORF1"
/product="p48"
mat_peptide 1002..2099
/gene="ORF1"
/product="NTPase"
mat_peptide 2100..2636
/gene="ORF1"
/product="p22"
mat_peptide 2637..3035
/gene="ORF1"
/product="VPg"
mat_peptide 3036..3578
/gene="ORF1"
/product="Pro"
mat_peptide 3579..5108
/gene="ORF1"
/product="RdRp"
gene 5092..6714
/gene="ORF2"
CDS 5092..6714
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QBN20804.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6714..>7420
/gene="ORF3"
CDS 6714..>7420
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QBN20805.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKVDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDS"
ORIGIN
1 gaatgaagat ggcgtctaac gacgcttccg ctgccgttgc tggcaaaaac aacaacaacg
61 acaaggaaaa atcttcaagt gacagcttgt ttgctaacat gtctgtcact tttaagaaag
121 ccctcggggc gcggtctaaa caaccgcccc cgggagaaac aaaacaaata caaaaaccac
181 caaggccacc gacaccggaa ttggtgaaga gaatacctcc acccccaccc aatggcgagg
241 atgaaccagg gatagtgtac aaggtgggag agggtgtgtc tgggctgccc gacctaacaa
301 ctgtggtaca acctgacgca caaaacacag cttatagtgt tcccccactt agccagagag
361 aagtcggcga agctaaagaa ccgctgcctg gctccattct ggaaatgtgg gatggtgaga
421 tctaccacta tgggctgtat gttgagcggg ggcatgtgct cggagtacac aaaccacctg
481 ctgcaataag ccttgccaaa attgaaataa caccgctgtc tctctactgg agagtggtct
541 acactcccca gtatttgata gatccaggaa ctcttaagaa cttgagtgga gagactttcc
601 catacacggc ctttgacaac aactgttatg ccttctgttg ttgggtccta gacctcaacg
661 actcctggct tagcaggaga atgatccaaa gaacaactgg attcttcaaa ccttatcagg
721 attggaacag aaaaccctta ccaaccatgg atgaaccgaa aatcaagaag gccgcgaatg
781 ctgtcctatg cgctctctcc tcactcttca ctagacccat taaggacatc attggaaagc
841 ttagaccact gaacattctt aatatactgg caacctgcga ttggactttt gcaggcatag
901 tggaatcctt gatccttctt gctgaactct ttggggtgtt ctggacaccc ccagatgtgt
961 ctgcgatgat tgctccctta ctcggtgact acgagatgca aggccccgaa gacctggccg
1021 tggaacttgt gcccgtggtg atgggaggaa taggtttggt gttaggattc accaaagaaa
1081 agatcggcaa gatgctttca tcagctgcga ccacacttag ggcctgcaag gatctaggat
1141 cttatggatt ggagatactc aaattggtca tgaagtggtt cttccccaag aaggaggagg
1201 ctaacgaact agccatggtg agggccattg aggatgcagt cctggatttg gaggcaatag
1261 aaaacaatca catgaccacc cttctcaagg ataaagacag cctggccaca tacatgagga
1321 ctcttgactt ggaagaagag aaagcaagga aactgtcaac caaatcggcg tcacctgaca
1381 tcgtgggtac aataaacgca ttattggcta ggatagcagc cgccaggtca ctggtccaca
1441 aggctaagga ggagctctcg agcagacaga gacctgttgt tgtaatgata tcaggtagac
1501 caggtatagg aaagacccat ctggccagag agctagccaa gaaagttgcg tcaacactgt
1561 caggcgacca aaggattgga ctggtaccta gaaatggcgt cgaccattgg gacgcctaca
1621 agggagaaag ggtggttctg tgggatgatt atggtatgag caaccctata caggacgcac
1681 tgaggctcca agaattggct gacacctgtc ctctgaccct aaattgtgat aggattgaaa
1741 acaaaggaaa agtgttcgac agtgatgcca taattataac aaccaacctt gcaaacccag
1801 caccactaga ctatgtcaac tttgaggcct gctctagacg catagacttc ttggtgtatg
1861 cagacgcacc tgacattgag aaggctaagc gtgacttccc tggccaacca gatatgtgga
1921 aagaccattt cagaccagac ttctcacaca ttaaacttca gctggcacca cagggaggtt
1981 ttgacaaaaa tggcaacacc ccacatggca aaggtgtggt gaagtccctg acgattggtt
2041 ctctgatcgc cagggcctcc ggcttgctcc acgagagaat ggatgaattc gagctccaag
2101 gctctgacct gccaaccttc aattttgacc gcaacaaagt cgccgccttc agacaattag
2161 cagctgaaaa caaatatggt cttatggaca cactgagggt cggcaaccaa ctgaaaagtg
2221 ttaagaccct ggatgagctg aagcaggcca taaagaacat cagtatcaag aagtgtcaga
2281 tagtgtataa tggatgcacc tataccatgg aatctgatgg gaggggcaag gttgtggttg
2341 aaaaggtaca aaacgcaaca gttcaaacca acaatgaact tgtaggggcg ctccaccacc
2401 tgagatctgc aaggataaga tactatgtta aatgtttcca agaagccatt tactctctac
2461 tccaaattgc tggtgcagcc ttcgtcacct cacgcatcgt gaggcgcatg aacatatcaa
2521 acctctggtc gaagccaccc atcgaggagg gtgatgagtc tgaagacaga ggaggatgcc
2581 ccaagcccag ggatgaagat gacctcacta ttgactctag agacattaaa gtggaaggga
2641 agaagggcaa gaacaagtct ggtcggggca agaaacacac agccttctct tccaagggcc
2701 tcagtgatga agagtacgat gagtacaaga gaatcagaga ggagaggaat ggcaaatact
2761 caatagagga atacctccaa gatagggaca gatactatga agagcttgcc attgctaagg
2821 ccactgagga ggacttctgt gaggaggagg agatcaaaat ccgccagaga atcttccgac
2881 ccaccaggaa gcagcggaaa gaggaaaggg ccacgcttgg gcttgtcaca ggatcggaaa
2941 tcagaaagag gaatccagat gactttaaac caaaaggaaa attgtgggct gatgacaaca
3001 ggagcgtgga ttacaatgag aggatagatt ttgaggctcc cccgagtgtt tggtctagga
3061 tagtcaactt tggcacaggc tggggattct gggtttctcc aagtctcttt ataacttcaa
3121 cacacgtcat accaaaagga atcactgagg cctttggagt gcccataaac caaatccaaa
3181 ttcacaaatc tggagaattt tgccgcttgc ggtttccaaa gccaattaga ccagacgtga
3241 gtgggatgat cttggaagag ggcgcccctg aaggcactgt tgtgtctatt ctcatcaaaa
3301 ggacaacagg ggagctgatg cctcttgcag tcagaatggg gactcatgcc acaatgaaaa
3361 tccaaggtag aacggtgggt ggtcagatgg gtatgcttct cactggctca aatgctaaaa
3421 gcatggatct aggcacaacg ccaggtgact gcggatgtcc atacatatac aaaaggggca
3481 atgaccttgt ggtcattggg gtgcacactg cagcagctcg tggaggcaac acggtcatat
3541 gtgccacaca gggaagtgaa ggtgaagcca ctcttgaagg aggtgacaac aagggtacct
3601 attgtggagc ccccattttg ggacctggca atgcaccaaa attgagcaca aagacaaaat
3661 tctggagatc ctctaacgca ccgcttcccc caggtactta tgaaccagca taccttggtg
3721 ggagagaccc gcgcgtgaag ggaggcccat ctctgcaaca agttatgaga gaccaactta
3781 aaccttttac agagcccaga gggaagccac caaacccaaa tgtcttagag tcagcaaaga
3841 agactatcat caatgttctg gaacaaacca ttgacccccc tcaaaagtgg tcatatgccc
3901 aagcttgtgc atccctcgac aagacaacct ccagtggata cccgcaccac gtccggaaga
3961 atgactattg gagtggtgaa tccttcacag gaaaacttgc agatcaggct tcaaaagcaa
4021 atctcatgta tgaggaaggc aagcacatgc aaccagttta caccgcagca ctcaaagacg
4081 agctcgtgaa aactgacaaa atttatggca aaatcaagaa aagactcctg tggggttctg
4141 acctctccac aatgattcga tgcgccagag catttggtgg tctcatggat gaattcaaag
4201 caaattgtat tacactccct atcagagttg gtatgaatat gaatgaagat ggtcccataa
4261 tatttgagaa acactccagg tacaggtacc actatgatgc tgattactcc cgctgggact
4321 ccacacaaca gcgggcagtg ctggaagcgg cacttgaaat catggtgaga ttttctgctg
4381 agccacagct ggcacaaata gtggcagagg acctgctgtc accaagtgtg gttgatgtgg
4441 gcgatttcaa aatcgctatc aatgaaggcc taccatctgg cgtgccttgc acctcacaat
4501 ggaattccat tgcccactgg ttacttacct tgtgtgccct ttctgaagtg acaggattag
4561 gtcctgacat catacaagct aactccatgt actctttcta tggtgatgat gagattgtga
4621 gcacagacat aaaattggac ccagagaaat tgaccgcaaa gctcaaagaa tatggcctta
4681 aacccactcg gcccgacaaa actgaggggc cgttggtgat tagtgaggac ctgaatgggt
4741 tgactttcct ccgccggaca gtcacccgtg atccagcagg ttggtttgga aagttggacc
4801 aaaactccat cctcaggcag ttgtactgga caagaggacc caaccatgaa gaccccagtg
4861 agaccatgat accacacgca caaagacctg tgcagctcat ggcactacta ggagaatcct
4921 ccctacatgg accctcattt tacagcaagg ttagcaaatt agtcatatct gaacttaaag
4981 agggaggaat ggatttttat gtgcccagac aagagtcaat gtacagatgg atgaggttct
5041 cagatctaag cacatgggag ggcgatcgca atctggctcc cagttttgtg aatgaagatg
5101 gcgtcgaatg acgccgctcc atctaatgat ggtgctgctg gtctcgtacc agagggcaac
5161 aacgagaccc ttcccctaga accagttgca ggcgcagcta tagccgcacc cgtcactggc
5221 caaaataaca taattgaccc ctggattaga acaaattttg tgcaagcacc aaatggagag
5281 ttcacagtgt cacccagaaa ctctcctgga gaaattttat taaacttaga gttgggccct
5341 gatttgaacc cttatttggc tcatttgtca aggatgtaca atgggtatgc tggtggagtg
5401 gaagttcagg ttctcctggc agggaacgcg ttcactgccg gaaagatcct cttcgccgcc
5461 gtcccgccaa atttcccagt ggaattctta agcccagccc agatcacaat gctcccacat
5521 ttaatagtag atgttaggac tcttgaacca attatgatcc cactccctga tgttaggaat
5581 acattcttcc attatagtaa ccagcctaac agccgcatga gattagtggc tatgctctat
5641 accccactca gatctaatgg ctcaggtgat gacgtcttta ctgtctcttg cagggttttg
5701 actaggccta ctcctgattt tgagttcact tatttagtgc caccttctgt tgaatctaaa
5761 actaagcctt tttccttacc tattttaacc ctttctgagc tcacaaattc gaggttccca
5821 gtccccatcg attcgctttt caccgcccag aataatgtgt tgcaggtgca gtgtcaaaat
5881 ggcaggtgta cacttgatgg cgagttacaa ggcacaaccc agttgctccc atctggcatc
5941 tgtgcattca gaggacgggt gacagcacaa attaaccaac gtgataggtg gcacatgcaa
6001 ctgcaaaacc tcaatggcac aacatatgac ccaactgatg atgtgccagc cccgctgggt
6061 acacctgact tcaagggcgt cgtgtttggg atggtaagcc aaagaaatgt gggtaatgat
6121 gcgcctggct caaccagagc ccaacaggcg tgggtttcaa cctatagccc ccaatttgtc
6181 cccaaattag gttctgtcaa tcttagaatt agtgataatg atgatttcca attccagccg
6241 acaaaattca caccagtggg cgtcaatgat gacgatgatg gccacccgtt cagacaatgg
6301 gaactaccaa actattcagg ggagcttacc ttgaatatga atcttgcccc cccagttgct
6361 ccaaattttc ctggtgaaca attgttattc ttcagatctt tcgtgccatg ctcaggaggt
6421 tacaaccaag gtattataga ttgtcttatt ccccaagaat ggatccaaca cttctatcag
6481 gaatcagcac cctcccagtc agacgtggcc ctaatcaggt atgtcaaccc cgatacggga
6541 cgtacactgt ttgaagcaaa attgcacaga tctggttaca ttactgtggc tcactctgga
6601 gactatcctc ttgttgttcc ggctaatgga cactttagat ttgattcttg ggtaaatcag
6661 ttttactcac tcgccccaat gggaactggg aatgggcgaa ggagggctca gtaatggctg
6721 gggctttcat tgcaggattg gcaggcgaca tgctcacgtc atctgtgggc tcccttgtga
6781 atgcaggggc aaacgccatc aaccaaaagg tagactttga aaacaacaaa caactccagt
6841 ctgcttcctt tcagcatgat aaagagatgc tccaagcgca ggtgagggcg accaagcagc
6901 tgcaatctga aatgatagcc ctaaaacagg gggttttggc cgcaggcggc ttttccccca
6961 ctgatgcagc aaggggatcc attggtgcac ccatgacaaa ggtgcttgac tggtctggca
7021 ctcgatactg ggcgcccaat tccacaaaga caactggcta ttcgggacaa ttcacctctt
7081 cacctgtgca tatgtctagc ccaaatgctc cacaatcaaa acctgcaaag cctaggtctc
7141 tagctccttc ctcttcttct agcagtgtct atagtatgta tactcaatct actcatttga
7201 catctggctc ttctagtaat gcttcttctg cctccacaaa attgacaaat ttaagctctg
7261 gctcctctca aaacagaaca gcagagtggg taaatcaaca gagaagtctt agccctttca
7321 tgagtggcgc acttaacatc tcacatgtca cgccaccctc aagtagggct tccagttctg
7381 ggacggtctc gaccgtgccc aaggaagttt tggactcctg
//