Typing tool
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Typing tool
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Complete norovirus genomes
| MK907787 | GII.3 | |
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| GII.P21 |
ORF1: 1..4899
ORF2: 4880..6526
ORF3: 6526..7220
LOCUS MK907787 7220 bp RNA linear VRL 02-NOV-2019
DEFINITION Norovirus GII isolate G19_016 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION MK907787
VERSION MK907787.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7220)
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JOURNAL Unpublished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 7220)
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..7220
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_016"
/isolation_source="sewage"
/db_xref="taxon:122929"
/country="France: Nantes"
/collection_date="08-Jan-2014"
/note="genotype: GII.3-GII.P21"
gene <1..4899
/gene="ORF1"
CDS <1..4899
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QCO93060.1"
/translation="IPPPPPNGEDEPTISYNVKEGVSGLPELSTVTQLEESSTAFSVP
PLSQRENRDAKEPLTGTILEMWDGEIYHYGLYVERGLVLGVHKPPAAISLAKVELTPL
SLYWRPVYTPQYLISPDTLKKLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQR
TTGFFRPYQDWNRKPLPTMDDSKVKKVANVVLCALSSLFTRPIKDIIGKLKPLNILNI
LATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYELQGPEDLAVELVPVV
MGGIGLVLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEKNELA
MVRSIEDAVLDLEAIENNHMTALLKDKDSLATYMRTLDMEEEKARKLSTKSASPDIVG
TINALLSRIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELAKKIASSLT
GDQRVGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRI
ENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPEVEKAKRDFPGQP
DMWKDTFKPDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTASSLVARASGLLHERLD
EYELQGPTPTTFNFDRNKVLAFRQLAAENKYGLVDTMRVGSQLKNVKTMTELKQALKN
ISVKKCQLVYGGGTYTLESDGKGNVHVEKVNNASVQTNNELSGALHHLRCARIRYYVK
CVQEALYSILQIAGAAFITTRIAKRMNIQNLWSKPQAEDLEETGNEEGCPKPKSDEEF
VISSDDIKTEGKKGKNKTGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQ
DRDKYYEEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRN
PDDFKPKGKLWADDDRSVDYNERLSFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHV
IPQGAQEFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVATLLIKR
PTGELMPLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKR
GNDYVVIGVHTAAARGGNTVICATQGSEGEAILEGGDNKGTYCGAPILGPGNAPKLST
KTKFWRSSTTPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGKPPKPSV
LEAAKKTIINVLEQTIDPPQKWTYAQACASLDKTTSSGHPYHMRKNDCWNGETFTGKL
ADQASKANLMFEEGKNMTPVYTGALKDELVKTDKIYGTIKKRLLWGSDLSTMVRCARA
FGGLMDELKAHCVTLPVRVGMNMNEDGPIIFEKHSRYKYHYDADYSRWDSTQQRAVLA
AALEIMVKFSPEPHLAQVVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHW
LLTLCALSEVTDLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTTKLKEYGLKPTRP
DKTEGPLIISEDLDGLTFLRRTVTRDPAGWFGKLDQSSILRQMYWTRGPNHEDPFETM
IPHSQRPIQLMSLLGEAALHGPSFYSKISKLVISELKEGGMDFYVPRQEPMFRWMRFS
DLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..789
/gene="ORF1"
/product="p48"
mat_peptide 790..1887
/gene="ORF1"
/product="NTPase"
mat_peptide 1888..2424
/gene="ORF1"
/product="p22"
mat_peptide 2425..2823
/gene="ORF1"
/product="VPg"
mat_peptide 2824..3366
/gene="ORF1"
/product="Pro"
mat_peptide 3367..4896
/gene="ORF1"
/product="RdRp"
gene 4880..6526
/gene="ORF2"
CDS 4880..6526
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCO93062.1"
/translation="MKMASNDAAPSNDGAAGLVPEINSEAMALEPVAGAAIAAPLTGQ
QNIIDPWIMNNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPDFSFNFLVPP
TVESKTKPFSLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGTLTRSTSRASDQADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDNTTRAHEAKIDTTSGRFTPKLGSLEISTESGDFDQNQP
TRFTPVGIGVDHEADFQQWTLPDYAGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPSQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KSGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRIQ"
gene 6526..>7220
/gene="ORF3"
CDS 6526..>7220
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCO93061.1"
/translation="MAGAFIAGLAGDMLTNTVGSLVNAGANAINQTIDFENNKYLQNA
SFNHDKEMLNAQVEATKRLQADMIAIKQGVLTAGGFSPTDAARGAINAPMTKVLDWNG
TRYWAPGATSTTSMSGGFTNQTVRRSTPNFKTNQAPKPAPSSGSSVRSNSTQITSLSS
HSSGSSRSSGSTVVSSIPSSNRTRDWVNQQNFNLEPHMPGSLRTAFVTPPSSTASSSG
TVSTVPKNVLDSWT"
ORIGIN
1 atcccccctc ccccacccaa cggggaggac gaaccaacca tttcttacaa cgtcaaagag
61 ggtgtttctg gtttgcctga actctcaact gttacccaac tggaagagag ctctacagca
121 ttcagcgttc cccctcttag tcagagggag aacagagatg caaaggaacc attgactgga
181 accatcctgg agatgtggga cggggagatc taccattatg gcttgtatgt ggaacgaggg
241 ttagtgctag gtgtacacaa accaccagca gccatcagcc ttgctaaggt tgagctgacc
301 cccttgtcct tgtattggag accagtgtat accccacagt acctcatttc ccctgacact
361 ctcaaaaagt tgcatgggga gacgttccct tatacagcct ttgataacaa ctgttatgcc
421 ttctgctgtt gggtacttga cttgaacgat tcatggctga gcagaaggat gatacagagg
481 acaacaggct tcttccgacc ctaccaggac tggaacagga aaccccttcc cacgatggat
541 gactccaaag tgaaaaaggt ggccaatgtt gtcctctgtg cactctcgtc attgtttaca
601 agaccaatta aggacattat tgggaagttg aagcccctaa acatcctcaa catcctagcc
661 acatgtgatt ggacttttgc aggcatagtg gaatcactaa tccttttggc tgaactgttt
721 ggagttttct ggacaccccc agatgtgtct gcaatgatcg ctcccttact aggtgattat
781 gagctgcagg gacccgagga cctcgctgtg gaactcgtac ccgtagtaat gggagggata
841 ggtttggtgc tgggattcac caaagagaaa atcggcaaaa tgctttcatc tgctgcttca
901 accctgaggg catgcaaaga tctcggtgca tatgggttgg agatcctcaa gttggtcatg
961 aaatggtttt tcccaaagaa agaagagaaa aacgaattgg caatggtgag atccatcgag
1021 gatgcagtgc tagatcttga ggccattgag aacaaccaca tgacggctct actcaaggat
1081 aaagacagcc ttgcaaccta catgaggact cttgacatgg aggaggagaa ggcgaggaaa
1141 ctttccacca agtctgcctc gccggatatt gtgggcacga taaatgccct actgtcaagg
1201 attgcagctg cccggtctct agtgcacagg gctaaggagg aactgtcaag caggccccga
1261 ccggtcgttg tgatgatttc agggagacca ggcataggga aaacccacct agctagagag
1321 ctggcaaaga agatcgcctc ctcactcaca ggtgaccaga gggtgggtct tatcccacgt
1381 aacggggtcg accactggga tgcatacaaa ggtgaaaggg tcgttctctg ggacgactac
1441 gggatgagta accctatcca cgacgccctc agactccaag agctcgctga tacctgtcct
1501 cttacactta actgtgacag gattgagaac aaaggcaaag tctttgacag tgacgccata
1561 ataataacca ccaatctggc taacccagcg ccactggatt acgtcaactt tgaagcctgc
1621 tcaagacgca tagacttcct cgtctatgct gatgcccctg aagttgagaa ggctaaacga
1681 gacttcccag gccaaccaga catgtggaaa gacaccttta aacctgactt ctcacacata
1741 aaattggcat tagccccgca aggaggtttt gacaagaatg gtaacactcc tcatgggaag
1801 ggtgtcatga agaccctcac tgccagttcc ctcgttgccc gtgcatcggg actcctccac
1861 gagagattag acgaatatga gctgcagggc ccaactccca caacattcaa cttcgaccgc
1921 aacaaggtgc ttgcctttag gcagcttgct gctgaaaaca agtatggcct tgtcgacaca
1981 atgagggtcg gatcacagct caagaatgtc aaaactatga cagagctcaa gcaggctctt
2041 aagaacatct cagtcaagaa atgtcagctt gtgtatggtg ggggcacgta cacactcgaa
2101 tctgatggca aaggcaatgt gcatgtcgag aaggtgaaca acgccagtgt tcaaacaaac
2161 aacgagctct ccggggcttt gcaccatctc aggtgtgcca gaatcaggta ctatgttaag
2221 tgtgtccagg aagctctcta ctccatcttg caaattgctg gggctgcatt cattaccaca
2281 cgcattgcaa agcgcatgaa catacaaaac ctctggtcca aaccacaggc agaagatctg
2341 gaggagactg gtaatgagga gggttgtcca aagcctaaaa gtgatgagga gtttgtcatc
2401 tcctctgatg acatcaaaac tgaaggcaag aaaggaaaga ataagaccgg ccgtggcaaa
2461 aagcacacag ccttttccag caaaggactc agtgatgagg agtacgatga atataaaaga
2521 atcagggaag aaaggaatgg caagtactcc atagaggaat acctacagga tagagacaag
2581 tactatgagg aggtggccat agccagggca actgaggaag acttctgtga agaagaggag
2641 gcaaagatcc ggcaaaggat atttagacca acaaggaaac aacgcaaaga ggaaagggcc
2701 tctcttggtt tggttacagg ttccgagatc aggaagagaa acccagatga cttcaagccc
2761 aaagggaaac tgtgggccga tgatgacagg agtgttgact acaatgagag acttagtttc
2821 gaggctccac caagcatttg gtcacgaata gtcaactttg gctcagggtg gggcttttgg
2881 gtctcgccca gcctcttcat aacatcaacc catgttatcc cccaaggcgc acaggagttc
2941 tttggagtgt ccatcaaaca aatacaaatt cacaagtcag gtgagttctg ccggcttagg
3001 ttcccaaaac caatcaggac agatgtcaca ggtatgatcc tggaagaggg tgctccagaa
3061 ggcactgttg ccacacttct catcaagaga ccaactgggg aactcatgcc cttggcagcc
3121 agaatgggca cccacgcgac catgaaaatt caaggtcgca ctgttggtgg acagatgggc
3181 atgttactta cagggtctaa cgctaagagt atggacctgg gtacaactcc tggcgattgt
3241 ggttgtccct acatctacaa aagggggaac gactacgtgg tcattggggt tcacactgcc
3301 gccgctcgtg gaggaaacac cgtcatctgt gcaactcaag gaagcgaggg tgaggccata
3361 ttagaaggtg gtgacaacaa gggaacttac tgtggagcac caatattggg ccctggaaat
3421 gctcccaaac tcagcaccaa aaccaaattt tggagatctt ccaccacccc cctaccaccc
3481 ggaacctatg agccagccta tctgggtggc aaggacccta gagtgaaagg tggcccctca
3541 ctgcaacagg ttatgaggga ccaactaaaa ccattcactg agcccagagg taaaccaccc
3601 aaaccaagtg tgctagaagc cgccaagaag actataatca atgtgcttga acaaacaata
3661 gacccacctc agaaatggac atacgcacag gcgtgtgcat cactagacaa gaccacttcc
3721 agcggccacc cttaccacat gcggaagaac gattgctgga atggggagac tttcacagga
3781 aaactggcag atcaagcatc aaaggctaac ctaatgtttg aggaagggaa gaacatgacc
3841 ccagtataca caggggctct gaaagatgag ttagtcaaga ctgataagat ctatggaaca
3901 atcaagaaga gactcctttg gggttcagac ctatcgacca tggtacggtg tgcacgagcc
3961 ttcggtgggc taatggacga actcaaggcc cattgcgtca cactaccagt cagggttggt
4021 atgaacatga atgaggatgg acccataatc tttgagaaac attccagata taaatatcat
4081 tatgatgcag actactcccg ttgggattca acacaacaaa gagcagtttt ggctgcagcc
4141 ctggaaataa tggtcaaatt ctcaccagaa ccccacctgg cccaagtggt tgcagaagac
4201 ctcttatccc ccagtgtgat ggatgtgggt gacttcaaaa tatcaattaa cgaggggtta
4261 ccctctggtg ttccctgcac ctcacaatgg aactccattg cccactggct cctcacacta
4321 tgtgcactgt ctgaggttac agacctgtct cctgacatta tccaggcaaa ttcactgttc
4381 tccttttatg gtgatgatga aatagtgagt acagatatca aactggaccc agaaaaactg
4441 acaacaaaat tgaaggaata cgggctaaag ccaacccgtc ctgacaaaac agaaggaccc
4501 ttaatcatct ctgaagattt ggatggcctg accttcttac ggagaacggt gacccgtgat
4561 ccggccgggt ggtttggcaa attggaccaa agttcaatac tcaggcagat gtactggacc
4621 aggggaccaa accatgagga ccccttcgaa acaatgatac cacactccca aagacccata
4681 caactgatgt cactattggg tgaagctgcg ttgcatggcc catcattcta cagtaaaatc
4741 agcaaattgg tcatctcaga attgaaagag ggtggaatgg atttttacgt gcccagacaa
4801 gaaccaatgt tcaggtggat gagattctca gatttgagca cgtgggaggg cgatcgcaat
4861 ctggctccca gttttgtgaa tgaagatggc gtcgaatgac gccgctccat ctaatgatgg
4921 tgccgccggc ctcgtcccag agatcaacag tgaggcaatg gcgctagagc cagtggcggg
4981 tgcagcgata gcagcacccc tcactggcca gcaaaatata attgatccct ggattatgaa
5041 taactttgtg caagcacctg gtggtgagtt cacagtatcc cctaggaatt cccctggtga
5101 agttcttctc aatttggaat tgggtccaga aataaatccc tacttggctc atcttgctag
5161 gatgtataat ggttatgcag gtggatttga agtgcaggtg gtcctagctg gaaatgcgtt
5221 tacagcagga aagataatct ttgcagctat tccccctaat tttccaattg ataatctaag
5281 tgcagcacag atcacaatgt gtccacatgt gattgtggat gttaggcagt tggaaccagt
5341 caacctcccg atgcctgacg ttcgcaataa ctttttccat tataatcagg ggtctgattc
5401 gagattgcgc ctaattgcaa tgttatacac acctcttagg gcaaataact ctggggatga
5461 tgttttcact gtgtcttgca gagtgctaac tagacctagt cctgacttct catttaattt
5521 ccttgtgcca ccaactgtgg agtcaaagac aaaacccttt tccctcccca ttctgactat
5581 ctctgaaatg tccaattcca ggttcccagt accaattgat tctctgcaca ccagccctac
5641 tgagaacatt gttgtccagt gccagaatgg acgcgtcacc cttgatggtg agttgatggg
5701 caccactcaa cttttaccta gccaaatctg tgctttcagg ggcacgctta ccagatcaac
5761 aagcagagcc agtgaccagg ccgatacagc aacccctaga ttgtttaatt attattggca
5821 tatacaattg gataacctaa atggaactcc ttatgaccct gcagaagata taccaggccc
5881 cctagggaca ccagatttcc ggggcaaagt ctttggcgtg gctagccaga gaaatcctga
5941 taacacgact agggcacatg aagcaaagat agacacaaca tctggccgct tcaccccaaa
6001 attaggctca ttagagattt ccactgaatc tggagatttt gatcaaaacc aaccaacaag
6061 attcacccca gttggcattg gggttgacca tgaggcagat ttccaacaat ggactcttcc
6121 cgactacgct ggccagttca cccacaacat gaacttagcc ccagctgttg ctcccaactt
6181 ccctggtgag caactccttt tcttccgctc acaattacca tcttccggtg ggcggtccaa
6241 cggtattcta gactgcctgg tcccccaaga atgggtgcag cacttctatc aagaatcagc
6301 cccctcccaa actcaagtgg ccctggttag gtatgtcaac cccgacactg gtagagtgtt
6361 atttgaggcc aagctgcaca aactaggttt catgactata gccaagagtg gtgactctcc
6421 aataactgtc cccccaaatg gatacttcag gtttgaatct tgggtgaacc ccttttatac
6481 acttgccccc atgggaactg ggaatgggcg tagaaggatt caataatggc tggagctttt
6541 atagcaggat tggctggtga tatgctcaca aatactgtag gatctttagt taatgcaggg
6601 gctaatgcta ttaatcaaac aattgatttt gaaaataata aatatttgca aaatgcctct
6661 tttaatcatg ataaggagat gttgaatgca caagttgagg caacaaagag gttacaggct
6721 gacatgattg ctatcaaaca aggggttttg accgctggcg gcttctcccc tactgatgca
6781 gcccgcgggg caattaatgc tcctatgaca aaagtcctag attggaatgg aacgagatac
6841 tgggcgccag gtgccacctc cacaacctcg atgtcaggtg gcttcacaaa tcaaactgtg
6901 cgcagatcca caccaaattt taaaacgaac caggccccca aacccgcacc cagcagtggg
6961 tcttcagtga ggtcaaattc aacccaaatc actagcctga gctcacactc gtccgggtcg
7021 tctcggtcca gcgggtctac agttgtcagc tcaataccgt cctctaacag gactagggac
7081 tgggttaacc aacaaaattt taatctggaa ccacacatgc ctggatctct taggacagct
7141 tttgtcactc caccatctag tacagcctct agctcaggca cagtctcaac tgtgcccaaa
7201 aatgttttgg actcctggac
//