Typing tool
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Typing tool
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Complete norovirus genomes
| MK907790 | GII.17 | |
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| GII.P17 |
ORF1: 1..4902
ORF2: 4883..6499
ORF3: 6499..7278
LOCUS MK907790 7343 bp RNA linear VRL 02-NOV-2019
DEFINITION Norovirus GII isolate G19_020 nonstructural polyprotein (ORF1)
gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete
cds.
ACCESSION MK907790
VERSION MK907790.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7343)
AUTHORS Strubbia,S., Phan,M.V., Schaeffer,J., Koopmans,M., Cotten,M. and Le
Guyader,S.
TITLE Optimisation of agnostic metagenomic approaches to characterise
human enteric viruses in sewage
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7343)
AUTHORS Le Guyader,S. and Strubbia,S.
TITLE Direct Submission
JOURNAL Submitted (09-MAY-2019) LSEM, IFREMER, Rue de l'Ile d'Yeu, NANTES
44311, France
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. 3.12.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7343
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_020"
/isolation_source="sewage"
/db_xref="taxon:122929"
/country="France: Nantes"
/collection_date="30-Mar-2014"
/note="genotype: GII.17-GII.P17"
gene <1..4902
/gene="ORF1"
CDS <1..4902
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QCO93069.1"
/translation="EIPPPPPNGEDEPKIAYKVGEGVSGLPDLTTVAQPDAQNTAYSV
PPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHILGVHKPPAAISLAKIELTP
LSLYWRVVYTPQYLIAPETLKNLSGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQ
RTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDIIGKLRPLNILN
ILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQGPEDLAVELVPV
VMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWFFPKKEEANEL
AMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIV
GTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLARELAKKVASTL
SGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELADTCPLTLNCDR
IENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDIEKAKRDFPGQ
PDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIARASGLLHERM
DEFELQGPDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVRTLDELKQAIK
NISIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALHHLRSARIRYYV
KCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPVEEGDEPEDKGGCPKPRDEDD
LTIDSKDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYL
QDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLGLVTGSEIRKR
NPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWVSPSLFITSTH
VIPKGITEAFGVPMNQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAPEGTVVSILIK
RTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYK
RGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPILGPGNAPKLS
TKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPN
VLESAKRTIINVLEQTIDPPEKWSYVQACASLDKTTSSGYPHHVRKNDYWSGESFTGK
LADQASKANLMFEEGKHMQPVYTAALKDELVKTDKLYGKIKKRLLWGSDLSTMIRCAR
AFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSRWDSTQQRAVL
EAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVPCTSQWNSIAH
WLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTR
PDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTRGPNHEDPSET
MIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPRQESMFRWMRF
SDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..792
/gene="ORF1"
/product="p48"
mat_peptide 793..1890
/gene="ORF1"
/product="NTPase"
mat_peptide 1891..2427
/gene="ORF1"
/product="p22"
mat_peptide 2428..2826
/gene="ORF1"
/product="VPg"
mat_peptide 2827..3369
/gene="ORF1"
/product="Pro"
mat_peptide 3370..4899
/gene="ORF1"
/product="RdRp"
gene 4883..6499
/gene="ORF2"
CDS 4883..6499
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCO93070.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGV
ASQRNVGNDAPGSTRAHEAVISTYSPKFVPKLGSVNFRSNDDDFQLQPTRFTPVGIND
DGNHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6499..7278
/gene="ORF3"
CDS 6499..7278
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCO93071.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAVNQKIDFENNKQLQSA
SFQHDKEMLQAQVKATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPNAPQSKPAKPRSLAPSSSSSSVYSMSTQLT
SLTSGSSSNASSASTKLTNSSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 gaaatacccc cacccccacc caatggcgag gatgaaccaa agatagcgta taaggtggga
61 gagggtgtgt ctgggctgcc cgacctaaca accgtggcac agcctgacgc acaaaacaca
121 gcctatagtg ttcccccact tagccagaga gaggtcggcg aagctaaaga accgttgcct
181 ggctccattc tggaaatgtg ggatggtgag atctaccact atgggctgta tgttgagcgg
241 gggcatatac tcggagtaca caaaccacct gctgcaataa gccttgccaa aattgaatta
301 acaccgctgt ctctctactg gagagtggtc tacactcccc agtatttgat agctccagaa
361 actcttaaga acttaagtgg agagactttc ccatacacgg cctttgacaa caactgttat
421 gccttctgtt gttgggtcct agacctcaac gactcctggc ttagcaggag aatgatccaa
481 agaacaactg gattcttcag accgtatcag gattggaaca gaaaaccctt gccaaccatg
541 gatgaaccga aaatcaagaa ggccgcgaat gctgttctgt gtgctctctc ctcactcttc
601 actagaccca ttaaggacat cattggaaag cttagaccac tgaacattct taatatactg
661 gcaacttgtg attggacttt tgcgggcata gtggaatcca tgatccttct tgctgaactc
721 tttggggtgt tctggacccc cccagatgtg tctgcgatga ttgctccctt actcggtgac
781 tacgagatgc aaggccccga agacctggcc gtggaacttg tgcccgtggt aatgggagga
841 ataggtttgg tgttaggatt caccaaggaa aagatcggca agatgctttc atcagctgcg
901 accacactta gggcctgtaa ggatctagga tcttatgggt tggagatact caaactggtc
961 atgaagtggt tcttccccaa gaaggaggag gccaacgaat tagccatggt gagggccatt
1021 gaggatgcag tcctggactt ggaggcaata gagaacaatc acatgaccac ccttctcaag
1081 gacaaagaca gcctggccac atacatgagg actcttgact tggaagaaga aaaagcaaga
1141 aaactgtcaa ccaaatcggc gtcacctgac atcgtgggca caataaacgc attattggcg
1201 aggatagcag ccgccaggtc actggtccac aaggctaagg aggagctctc aagcagacag
1261 agacctgttg ttgtgatgat atcaggtaga ccaggtattg gaaagaccca tctggccaga
1321 gagctagcca agaaagttgc gtcaacactg tcaggcgacc agaggattgg actgatacct
1381 agaaatggcg tcgaccattg ggacgcctac aaaggagaga gggtggttct gtgggatgat
1441 tatggcatga gcaaccctat acaggacgca ctgaggctcc aagaattggc tgacacctgt
1501 cctctgaccc taaattgtga caggattgaa aacaaaggaa aagtgttcga cagtgacgcc
1561 ataatcataa caaccaacct tgcaaaccca gcaccactgg actatgtcaa ctttgaggcc
1621 tgttctagac gcatagattt cctggtgtat gcagacgcac ctgacatcga gaaggctaag
1681 cgtgatttcc ctggccaacc agatatgtgg aaagaccatt acagaccaga cttcacacac
1741 attaaacttc agctggcacc acagggaggc tttgataaaa atggcaacac cccacatggc
1801 aaaggtgtgg tgaagtctct gacgattggt tctcttatcg ccagggcttc tggcttgctc
1861 cacgagagaa tggatgaatt cgagctccaa ggccctgacc tgccaacctt caatttcgac
1921 cgcaacaaag tcgccgcctt cagacaatta gcagctgaaa acaaatatgg tcttatggac
1981 acgctgaggg tcggcaacca actgaaaagt gtcagaaccc tggatgagct gaagcaggcc
2041 ataaagaaca tcagtatcaa gaagtgccag atagtgtata atgggtgcac ctataccatg
2101 gaatctgatg gaaggaacaa ggttgtggtt gaaaaggttc aaaatgcaac agttcaaacc
2161 aacaatgaac ttgcaggggc actccaccac ctaagatctg caaggataag atattatgtt
2221 aagtgtttcc aagaagctat ttactctcta ctccaaattg ctggtgcagc cttcgtcacc
2281 tcacgcatcg tgaggcgcat gaacatctca aacctctggt cgaagccacc cgtcgaagag
2341 ggtgatgagc ctgaagacaa aggaggatgc cccaagccca gggatgaaga tgacctcact
2401 attgactcta aagacattaa agtggaaggg aagaagggca agaacaaatc tggccggggc
2461 aagaaacaca cagctttctc atccaagggc ctcagtgatg aagagtacga tgagtacaag
2521 agaatcagag aggagaggaa tggcaaatac tcaatagagg aatacctcca agatagggat
2581 agatactatg aagagcttgc cattgctaag gccactgagg aagacttctg tgaagaggag
2641 gaaatcaaaa ttcgccagag aatcttccga cccaccagga agcagcggaa agaggaaagg
2701 gccacgcttg ggcttgtcac aggatcggaa atcagaaaga ggaatccaga tgactttaaa
2761 ccaaaaggaa aattgtgggc tgatgacaac aggagtgtgg attacaatga gaggatagat
2821 tttgaggctc ccccgagtgt ttggtctagg atagtcaact ttggcacagg atggggattc
2881 tgggtttctc caagtctctt tataacttca acacacgtca taccaaaagg aatcactgag
2941 gcctttggag tgcccatgaa ccaaatccaa attcacaaat ctggagaatt ttgccgcttg
3001 cggtttccaa aaccaatcag accagacgtg agtgggatga tcttggaaga gggtgcccct
3061 gaaggcactg ttgtgtccat tctcatcaag aggacaacag gggagctgat gcctctcgca
3121 gtcagaatgg ggactcatgc cacaatgaaa atccaaggta gaacagtggg tggtcagatg
3181 ggtatgcttc tcactggctc gaatgctaaa agcatggatc taggcacaac accaggtgat
3241 tgtgggtgcc catacatata caaaaggggc aatgacttcg tggtcattgg ggtgcacact
3301 gcagcagctc gtggaggcaa tacggtcata tgtgccacac agggaagtga aggtgaagcc
3361 actctcgaag gaggtgacaa caagggtacc tattgtggag cccccatttt gggacctggc
3421 aatgcaccaa aattgagcac aaaaacaaaa ttctggagat cttctaacgc accgcttccc
3481 ccaggtactt atgaaccagc ataccttggt ggaagagacc cccgtgtgaa gggaggccca
3541 tctctgcaac aggttatgag agaccaactt aaacctttta cagagcccag agggaagcca
3601 ccaaaaccaa atgtcctaga atcagcaaag aggactatca tcaatgttct ggaacaaacc
3661 attgaccccc ctgaaaagtg gtcatatgtc caagcttgtg catccctcga caagacaacc
3721 tccagtggat acccgcatca cgtccggaag aatgactatt ggagtggtga atccttcacg
3781 gggaaacttg cagaccaggc ctcaaaagca aatctcatgt ttgaggaagg caagcacatg
3841 caaccagttt acaccgcagc actcaaagac gagctcgtga aaactgacaa actttatggc
3901 aagatcaaga aaagactcct gtggggttct gacctatcca ccatgattcg atgcgccaga
3961 gcatttggtg gtctcatgga tgagctcaaa gcaaattgta ttacactccc tatcagagtt
4021 ggtatgaaca tgaatgaaga tggtcccata atatttgaaa aacactctag gtacagatac
4081 cactatgatg ccgattactc ccgctgggac tccacacagc agcgggcagt gctggaagcg
4141 gcacttgaaa tcatggtgag attttctgct gagccacagc tggcacaaat agtggcagag
4201 gacctgctgt caccaagtgt ggttgatgtg ggcgacttca aaattgccat caatgaaggc
4261 ctaccatctg gcgtgccttg cacctcacaa tggaattcta ttgcccactg gttactcacc
4321 ctgtgtgccc tgtctgaagt gacaggacta ggtcctgaca tcatacaagc caactccatg
4381 tactctttct atggtgatga tgagattgtg agcacagaca taaaattgga cccagagaaa
4441 ttgactgcaa agctcaaaga atatggcctt aaacccactc ggcccgacaa aactgagggg
4501 ccgctggtga ttagtgaaga cctgaatggg ttgactttcc tccgccgaac agtcacccgc
4561 gatccagcag gttggtttgg aaagttggac caaaactcca tcctcaggca gctgtactgg
4621 acaagaggac ccaaccatga agaccccagt gagaccatga taccacacgc acagagacct
4681 gtgcagctca tggcactact aggagaatcc tccctacatg gaccctcatt ttacagcaag
4741 gttagcaagc tggtcatatc tgaacttaaa gagggaggaa tggattttta tgtgcccaga
4801 caagagtcaa tgttcagatg gatgaggttc tcagatctaa gcacatggga gggcgatcgc
4861 aatctggctc ccagttttgt gaatgaagat ggcgtcgaat gacgccgccc catctaatga
4921 tggtgctgct ggtctcgtac cagagggcaa caacgagacc cttcccctag aaccagttgc
4981 gggcgcagct atagccgcac ccgtcactgg ccaaaacaac ataattgacc cctggattag
5041 gacaaatttt gtgcaagcac caaatggaga gttcacagtg tcacccagaa actctcctgg
5101 agaaatttta ctaaacctag agttgggccc tgatttgaac ccttatttgg ctcatttgtc
5161 aaggatgtac aatgggtatg ctggtggagt ggaagttcag gttctcctgg cagggaacgc
5221 gttcactgcc gggaagatcc tcttcgccgc cgtcccgcca aatttcccag tggaattcct
5281 aagcccagcc cagattacaa tgctcccaca tataatagta gatgttagga ctcttgaacc
5341 aattatgatc ccactacctg atgttaggaa tacattcttc cattataaca accagcccaa
5401 cagccgcatg agattggtgg ctatgctcta tacccccctt agatctaatg gctcaggtga
5461 tgatgttttc actgtttctt gcagggtttt gactaggcct actcctgatt ttgagttcac
5521 ttatttagtg ccaccttctg ttgaatctaa gactaagcct ttttccttac ccattctaac
5581 cctttctgag ctcacaaatt cgaggttccc agtccccatc gattcgcttt tcaccgccca
5641 gaataatgtg ttgcaggtgc agtgtcaaaa tggcaggtgc acacttgatg gtgagttaca
5701 aggcacaacc cagttgctcc catctggcat ctgtgcattc agaggacggg tgacagcaga
5761 aactgacaat cctgacaagt ggcacatgca actgcaaaac ctcaatggca caacatatga
5821 cccaactgat gacgtgccag ccccactggg tacacctgac ttcaagggcg tcgtgtttgg
5881 ggtagcaagc caaagaaatg tgggcaacga tgcgcctggc tcaaccaggg cccatgaggc
5941 ggtgatttcg acctatagcc ccaaatttgt ccccaaatta ggctctgtca attttagaag
6001 taatgatgat gatttccaat tgcagccgac aagattcaca ccagtgggca tcaatgacga
6061 tggtaaccac ccgttcagac aatgggaact accagactat tcaggggtgc ttaccttgaa
6121 tatgaacctt gcccccccgg ttgctccaaa tttccctggt gaacaattat tattcttcag
6181 atctttcgtg ccatgttcag gaggttataa ccaaggcatt atagattgtc ttattcccca
6241 agaatggatc caacatttct atcaggaatc agcaccctcc cagtcagacg tggccctgat
6301 caggtatgtc aaccccgaca cgggacgcac actgtttgaa gcaaaattgc atagatctgg
6361 ttatatcact gtggctcatt ctggagatta tcctcttgtt gttccggcta atggatactt
6421 tagatttgat tcttgggtaa accagtttta ctcactcgcc ccaatgggaa ctgggaatgg
6481 gcgaaggagg gctcagtaat ggctggagct ttcattgcag gattggcagg cgacatgctc
6541 acgtcatctg tgggctccct ggtgaacgca ggggcaaacg ccgtcaacca aaagatagac
6601 tttgaaaaca acaaacaact ccagtctgct tcctttcagc atgataaaga gatgcttcaa
6661 gcgcaggtga aggcaaccaa gcagctgcaa tctgaaatga tagccctaaa acagggggtt
6721 ttggccgcag gcggcttttc ccccactgat gcagcaaggg gagccatcgg tgcacccatg
6781 acaaaggtgc ttgactggtc tggcactcga tactgggcac ccaattccac aaagacaact
6841 ggttattcgg ggcaattcac ctcttcacct gtgcacatgc ctagcccaaa tgctccacaa
6901 tcaaaacccg caaagcccag gtctctagct ccttcctctt cttctagtag tgtctatagt
6961 atgtctactc aattaacttc tctaacatct ggctcttcta gtaatgcttc ttctgcctct
7021 acaaaattga caaattcaag ctctggctcc tctcaaaaca gaacagcaga gtgggtgaac
7081 caacagagaa gtcttagccc tttcatgagt ggcgcactca atatttcaca tgtcacgcca
7141 ccctcaagta gggcctccag ttctgggacg gtctcgaccg tgcccaagga agttttggac
7201 tcctggacat ctgcatttaa cacacgcaga cagccgctct tcgcacacct cagagtgagg
7261 ggggagtcac gtgtttagtg aaaagaaata attggctata atatgatttc tttaaaattt
7321 ggctaatttg tgtcttttaa aaa
//