Typing tool
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Typing tool
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Complete norovirus genomes
| MK956173 | GI.1 | |
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| GI.P1 |
ORF1: 1..5007
ORF2: 4991..6583
ORF3: 6583..7134
LOCUS MK956173 7134 bp RNA linear VRL 12-NOV-2019
DEFINITION Norovirus GI isolate G19-001 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MK956173
VERSION MK956173.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7134)
AUTHORS Strubbia,S., Schaeffer,J., Oude Munnink,B.B., Besnard,A.,
Phan,M.V.T., Nieuwenhuijse,D.F., de Graaf,M., Schapendonk,C.M.E.,
Wacrenier,C., Cotten,M., Koopmans,M.P.G. and Le Guyader,F.S.
TITLE Metavirome Sequencing to Evaluate Norovirus Diversity in Sewage and
Related Bioaccumulated Oysters
JOURNAL Front Microbiol 10, 2394 (2019)
PUBMED 31681246
REMARK Publication Status: Online-Only
REFERENCE 2 (bases 1 to 7134)
AUTHORS Le Guyader,S., Schaeffer,J., Strubbia,S., Besnard,A., Phan,M.V.,
Cotten,M., Oude Munnink,B.B., Nieuwenhuijse,D.F., De Graaf,M. and
Koopmans,M.
TITLE Direct Submission
JOURNAL Submitted (21-MAY-2019) LSEM, IFREMER, Rue de l'Ile d'Yeu, NANTES
44311, France
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. v3.12.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7134
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="G19-001"
/isolation_source="sewage"
/db_xref="taxon:122928"
/country="France: Nantes"
/collection_date="22-Mar-2018"
/note="genotype: GI.1-GI.P1"
gene <1..5007
/gene="ORF1"
CDS <1..5007
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QCT04920.1"
/translation="EWFDAGGLGPCTMPPTYERVRDDSPPGEQVKWSARDGVNIGVER
LTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTVGVHS
PQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELENEPWPYAAITNNCFEFCC
QVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGLVSQP
FKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGVFWNPPDVSNFIASLLPDF
HLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLEIFSL
LKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEEEKAR
KLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRMRPVVIMMCGPPGIGKTKA
AEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNKLQAI
ADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAP
EVEQIRRVSPGDTSALKDCFKSDFSHLKMELAPQGGFDNQGNTPFGRGTMKPTTINRL
LIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLRGVTT
MEGLKNALKGYKISACTIKWQAKVYSLESDGNSVNIKEERNILTQQQQSVCAASVALT
RLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFGTRTATLSLEGPPREHKCR
VHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGRGRKN
NYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGE
TEMEIRHRVFYKSKSRKHQQEQRRQLGLVTGSDIRKRKPIDWTPPKNEWADDDREVDY
NEKINFEAPPTMWSRVTKFGSGWGFWVSPTVFITTTHVVPTGVKEFFGEPLTNIAIHQ
AGEFTQFRFSKKIRPDLTGMVLEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRI
QGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTV
VCAVQASEGETALEGGDKGHYAGHEIVRHGNGPALSTKTKFWRSSPEPLPPGVYEPAY
LGGRDPRVQNGPSLQQVLRDQLKPFAEPRGRMPEPGLLEAAVETVTSMLEQTMDTPSP
WSYADACQSLDKTTSSGFPYHKRKNDDWNGTTFVRELGDQAAHANNMYENGKHMKPIY
TAALKDELVKPEKVYQKIKKRLLWGADLGTVIRAARAFGPFCDAIKPHVIKLPIKVGM
NTIEDGPLIYAEHAKYKNHFDADYTAWDSTQNRQIMTESFSIMSRLTASPELAEVVAQ
DLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWIITLCALSEATGLSPDVVQSM
SYFSFYGDDEIVSTDIDFDPARLTQILKEYGLRPTRPDKTEGPIQVRKNVDGLVFLRR
TISRDAAGFQGRLDRASIERQIFWTRGPNHSDPSETLVPHTQRKVQLISLLGEASLHG
EKFYRKISSKVIHEIKTGGLEMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV
"
mat_peptide <1..837
/gene="ORF1"
/product="p48"
mat_peptide 838..1926
/gene="ORF1"
/product="NTPase"
mat_peptide 1927..2523
/gene="ORF1"
/product="p22"
mat_peptide 2524..2937
/gene="ORF1"
/product="VPg"
mat_peptide 2938..3480
/gene="ORF1"
/product="Pro"
mat_peptide 3481..5004
/gene="ORF1"
/product="RdRp"
gene 4991..6583
/gene="ORF2"
CDS 4991..6583
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCT04918.1"
/translation="MMMASKDATSNVDGASGAGQLVPEVNTSDPLAMDPVAGSSTAGA
TAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNG
WVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQSTLFPHVIADVRTLDPIEV
PLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLF
LVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPIGSMGISPDNVQSVQFQNGRCTLDGRL
VGTTPVSLSQVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHVNMTQ
FGHSSQTQFDVDTTPETFVPHLGSIQANGIGSGNYIGVLSWISPPSHPSGSQVDLWKI
PNYGSSVTEATHLAPSVFPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHFASEQA
PTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS
RFYQLKPVGTASSARGRLGLRR"
gene 6583..>7134
/gene="ORF3"
CDS 6583..>7134
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCT04919.1"
/translation="MAQAIIGAIAASTAGSALGAGIQVGGEAALQSQRYQQNLQLQEN
SFKHDKEMIGYQVEASNQLLAKNLATRYSLLRAGGLSSADAARSIAGAPVTRIVDWNG
VRVSAPESSATTLRSGGFMSVPIPYTSKQKQIQSSGISNPNYSPSSISRTTSWVESQN
SSRFGNLSPYHTEALNTVWLTPPG"
ORIGIN
1 gaatggtttg acgctggtgg tttgggccct tgcacaatgc ctccaacata tgaacgggtc
61 agggacgaca gtccacctgg tgaacaggtt aaatggtccg cacgtgatgg agttaacatt
121 ggagtggaac gcctcacgac agtgagtggg cctgagtgga atctttgccc cttacccccc
181 attgatttga ggaacatgga accagctagt gaacccacta ttggagatat gatagaattc
241 tacgaaggcc acatctatca ttactccata tacattgggc aaggcaaaac agtcggcgtc
301 cattctccac aggcggcatt ttcagtggct agagtgacca tccagcccat agccgcttgg
361 tggagagttt gttacatacc ccaacccaag catagactga gttacgacca actcaaggaa
421 ctagagaatg agccatggcc atacgcggcc ataaccaata attgttttga attctgctgt
481 caagtcatga accttgagga cacgtggttg caaaggcgac tggtcacgtc gggcagattc
541 caccacccca cccagtcgtg gtcacagcag acccctgagt tccaacaaga tagcaagtta
601 gagttggtta gggacgccat attggctgca gtgaatggtc ttgtttcgca gccctttaag
661 aacttcttgg gtaaactcaa acccctcaat gtgcttaaca tcctgtctaa ctgtgattgg
721 accttcatgg gggtggtgga aatggtcata ctactacttg aactctttgg tgtgttctgg
781 aacccgcctg atgtatccaa ttttatagcg tcccttcttc ctgatttcca tcttcaggga
841 cctgaagact tggcacgaga tctagtccca gtgattcttg gtggtattgg attagccatt
901 gggttcacca gagacaaagt tacaaaggtc atgaagagtg ctgtggatgg tcttcgagct
961 gccacacaac tgggacagta tggattagaa atattctcac tgctcaagaa gtacttcttt
1021 gggggggacc agactgagcg caccctcaaa ggcattgagg cagcagtcat agatatggag
1081 gtactgtcct ccacttcagt gacacagcta gtgagggaca aacaggcagc aaaggcctat
1141 atgaacatct tggacaatga agaagagaag gccaggaagc tctctgctaa aaacgctgac
1201 ccacatgtga tatcctcaac aaatgcccta atatcgcgca tatccatggc acgatctgca
1261 ttggccaagg ctcaggctga gatgaccagt cgaatgcgac cagttgtcat tatgatgtgt
1321 ggcccacctg ggattgggaa gaccaaggct gctgagcacc tagctaagcg tctagccaat
1381 gagatcagac caggtggtaa ggtggggttg gttccccgtg aagctgtcga ccactgggac
1441 ggttatcatg gtgaggaagt gatgctgtgg gatgactatg gcatgacaaa aatacaagac
1501 gactgtaata aactccaggc cattgctgat tcggcccccc tcacattaaa ttgtgatagg
1561 attgaaaata aagggatgca gttcgtttca gatgcaatag tcatcaccac caacgcccca
1621 ggccccgccc ctgtggactt tgtcaacctt ggaccagtgt gtagacgggt cgactttttg
1681 gtgtattgct ctgccccaga ggtggagcag atacggagag tcagccctgg cgacacatca
1741 gcactgaaag actgcttcaa gtcagatttc tcacatttaa aaatggagct ggctccacaa
1801 ggtgggtttg ataatcaagg gaacacaccg tttggcaggg gcaccatgaa gccaacaacc
1861 attaatagac tcctcataca agccgtggcc cttaccatgg aaaggcagga tgagttccag
1921 ttgcagggaa aaatgtatga ctttgatgat gacagggtgt cagcgtttac caccatggca
1981 cgtgacaatg gcctgggcat cttgagcatg gcgggtctgg gtaagaagtt acgcggtgtc
2041 acaacgatgg agggcttgaa gaatgccctg aagggataca aaattagtgc gtgcacgata
2101 aaatggcagg ctaaagtgta ctcactagag tcagatggca acagtgtcaa cattaaagag
2161 gagaggaaca tcttaactca acaacaacag tcagtgtgtg ctgcctctgt cgcgctcact
2221 cgcctccggg ctgcgcgtgc ggtggcatac gcgtcatgca tccaatcggc tataacttct
2281 atactacaaa ttgctggctc agccctagtg gtcaacagag cagtgaagag aatgtttggc
2341 acgcgtactg ccaccctgtc ccttgagggc ccccccagag aacacaaatg cagggtccac
2401 atggccaagg ccgcaggaaa ggggcctatt ggccatgatg atgtggtaga aaagtatggg
2461 ctttgtgaaa ctgaggagga cgaagaagtg gcccacactg aaatcccttc tgccactatg
2521 gagggcaaga ataaagggaa gaacaagaaa ggacgtggtc ggaagaacaa ctacaacgcc
2581 ttctcccgca ggggactcaa tgatgaagag tacgaagagt acaagaagat acgcgaggag
2641 aaaggtggca attatagcat acaggagtac ctagaggata ggcaaaggta tgaagaagag
2701 ctagcagagg ttcaagcagg tggagatgga ggaatcgggg aaactgaaat ggaaatccgc
2761 cacagagtgt tctacaaatc caaaagcaga aaacaccaac aagagcagcg acgtcaactt
2821 ggcctagtaa ctggatcgga catcaggaaa cgcaaaccta ttgattggac cccaccaaag
2881 aatgaatggg ccgatgatga tagggaagtt gactacaatg aaaagatcaa ttttgaggcc
2941 cccccaacaa tgtggagccg ggtcacaaag tttgggtcag ggtggggttt ctgggtcagt
3001 ccaaccgtgt tcatcaccac cacgcatgtg gtgccaactg gcgtgaagga attctttggc
3061 gaacccctca ccaacatagc aatccatcaa gcaggcgagt tcacacagtt cagattttcc
3121 aaaaagatac gccctgacct gacgggcatg gtgttggagg aagggtgccc tgaaggaaca
3181 gtctgttcag tcctaatcaa acgagactcg ggcgagcttc tccctctagc tgtccgtatg
3241 ggggctattg cctctatgag gatacagggt cgccttgttc atggccaatc aggtatgcta
3301 ttgacaggag cgaatgcaaa aggaatggac cttggaacta taccagggga ctgtggagca
3361 ccatatgtcc acaagcgcgg taatgactgg gtcgtgtgtg gggtccatgc tgcagccaca
3421 aaatcaggta acactgtggt ctgtgctgtg caggctagtg aaggtgagac cgcattagaa
3481 ggcggagaca aggggcatta tgcgggccat gaaattgtaa ggcacgggaa tggcccagca
3541 ttgtcaacta aaacaaagtt ctggagatcc tccccagagc cattgccccc tggtgtttat
3601 gaacctgcat acctaggagg aagggaccct cgtgtccaaa atggcccctc cctccaacag
3661 gttctgcgtg accaattgaa acccttcgca gaaccccgtg gtcgcatgcc tgagcccggt
3721 ttgctggagg cagcagttga aactgtaaca tccatgttag agcaaacaat ggatactcca
3781 agcccatggt cttatgctga tgcttgtcaa tctcttgata aaactacaag ttcaggcttt
3841 ccctatcaca agaggaagaa tgatgattgg aacggcacca cctttgtcag ggagcttggt
3901 gaccaggccg cacatgctaa caacatgtat gaaaatggta aacacatgaa acccatctac
3961 acagcagctt tgaaggatga gctagtcaaa cccgaaaagg tctaccaaaa gatcaaaaag
4021 cgcctattat ggggtgctga ccttgggact gtaatcagag ctgcccgagc ttttggccca
4081 ttttgtgatg ctataaagcc acatgtcatc aagctaccaa taaaggttgg tatgaacaca
4141 atagaagatg gccccctaat ttatgctgag catgccaagt acaaaaacca ctttgacgcg
4201 gattatacgg catgggattc aacacagaac agacaaatta tgacagaatc tttctccatt
4261 atgtcacgcc ttacagcctc ccccgagttg gccgaagtcg tggctcagga tttattggca
4321 ccatctgaga tggatgtggg tgactatgtc ataagagtta aggaaggctt accatctggg
4381 ttcccgtgta cttcccaagt gaacagcata aatcattgga taattactct ctgtgcactt
4441 tctgaagcca ctggtctgtc acctgatgtg gtgcaatcaa tgtcatattt ttcattttat
4501 ggtgatgatg agattgtgtc aactgacata gattttgacc cagcccgtct cacccaaatc
4561 cttaaggaat atggccttag accaacaagg ccagacaaaa ctgaaggtcc aatacaggtc
4621 aggaaaaatg tggatggatt agttttcttg cgccgcacca tctcccgcga tgctgcaggg
4681 ttccagggca gattggacag ggcctcaatt gaacggcaga ttttctggac ccgcgggccc
4741 aatcattcag atccttcaga gaccttagta ccacacaccc aaagaaaagt gcaattgatc
4801 tcactattgg gagaggcttc actccatgga gaaaagttct acagaaagat ttccagcaaa
4861 gtcatacatg aaatcaagac tggtggattg gagatgtatg ttccagggtg gcaggccatg
4921 ttccgctgga tgcgcttcca tgacctcgga ttgtggacag gagatcgcaa tctcctgccc
4981 gaattcgtaa atgatgatgg cgtctaagga cgctacgtca aacgtggatg gcgccagcgg
5041 cgctggtcag ttggtaccgg aggttaatac ttctgacccc cttgcaatgg atcctgtggc
5101 gggttcttcg acagcgggtg cgactgctgg acaagtaaac cccattgatc cttggataat
5161 taacaatttt gtgcaggctc cccaagggga gtttacaatc tccccaaata atacccccgg
5221 tgatgtttta tttgatctga gtttaggtcc ccatcttaac cccttcttgc tacatctgtc
5281 acaaatgtac aatggctggg ttggcaatat gagagttagg attatgctgg ccggtaatgc
5341 tttcactgca ggtaagatca tagtctcctg tatacctcct ggttttggat cgcataatct
5401 cactatagca caatcaactc tgttcccaca tgtgattgct gatgtcagga ctctagaccc
5461 tatagaagtg cctttggaag atgttagaaa tgtccttttc cataataatg ataggaatca
5521 acaaaccatg cgccttgtgt gcatgttgta cacccctctc cgcactggtg gcggtacagg
5581 tgattccttt gttgtggcgg ggcgggttat gacctgccct agtcctgatt ttaatttctt
5641 gttcctggtt ccccccacag tggagcagaa aactagacct ttcacccttc caaatttgcc
5701 tttgagctct ttgtccaatt cacgtgctcc tcttccaatt ggcagcatgg gcatctctcc
5761 agacaatgtc cagagtgtac agttccaaaa tggtcgatgt actttggacg gccgtttggt
5821 tggtaccacc ccagtttcac tatcccaggt tgctaagata aggggcactt caaatggtac
5881 tgttatcaac ctcaccgaat tggatggtac accctttcac ccttttgagg gccctgcccc
5941 cattggattc ccagacctcg gtggttgtga ttggcacgtt aatatgacac aatttggcca
6001 ctctagtcag acacaatttg atgtggatac cacccctgaa accttcgtcc ctcatttggg
6061 atcaatccag gcaaatggta ttggtagtgg caattatatt ggtgttctca gttggatctc
6121 ccctccatca catccctctg gttcccaggt agatctttgg aagatcccca actatgggtc
6181 gagtgttact gaggcaacac atctggcccc atcagttttc ccacccggct tcggggaagt
6241 gctggttttc ttcatgtcaa agatgccagg gcctggcgcc tacaatctgc cctgtttgct
6301 gccacaagag tacatctcac attttgcaag tgagcaagcc cccactgtgg gtgaggctgc
6361 tctactccat tatgttgatc ctgatacagg gcggaacctt ggggagttca aagcatatcc
6421 cgatggattc ctcacttgtg tccccaatgg agccagctcg ggtccacaac aattaccaat
6481 caatggggtt tttgtttttg tctcttgggt gtctaggttc tatcaattga agcctgtggg
6541 aactgccagc tcggcaagag gtaggcttgg actgcgccga taatggccca agctataatt
6601 ggtgcaattg ctgcctccac agcgggcagt gcccttgggg caggcataca ggttggtggt
6661 gaggcagcac tccaaagtca aagataccaa cagaatttgc aactgcaaga gaattccttc
6721 aaacatgaca aagaaatgat tggatatcag gttgaggctt caaatcaatt gctagccaag
6781 aatctggcaa ctagatactc actcctccgt gctggaggcc tatccagtgc tgatgcagca
6841 aggtccatag cgggagcccc agtgacccga atcgtggact ggaacggtgt gagggtgtca
6901 gcccctgagt cttctgcaac cacattgagg tctggtggct ttatgtcggt gccaatacca
6961 tatacatcta aacagaaaca aatccaatca tctggtatta gtaatccaaa ttattctcct
7021 tcttccatct ctcgaaccac tagttgggtt gaatcacaaa attcatcaag atttgggaat
7081 ttatccccat accacacaga ggccctcaat acagtgtggt tgaccccacc tggt
//