Typing tool
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Typing tool
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Complete norovirus genomes
| MK956178 | GI.2 | |
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| GI.P2 |
ORF1: 1..5121
ORF2: 5105..6745
ORF3: 6745..7380
LOCUS MK956178 7433 bp RNA linear VRL 12-NOV-2019
DEFINITION Norovirus GI isolate G19-006 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK956178
VERSION MK956178.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7433)
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
REFERENCE 2 (bases 1 to 7433)
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..7433
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="G19-006"
/isolation_source="sewage"
/db_xref="taxon:122928"
/geo_loc_name="France: Nantes"
/collection_date="22-Mar-2018"
/note="genotype: GI.2-GI.P2"
gene <1..5121
/gene="ORF1"
CDS <1..5121
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QCT04933.1"
/translation="QEEVQYGMGWSNRPIDQNVKSWEELDTTVKEEILDNHKEWFDAG
GLGPCTMPPTYERVRDDSPPGEQVKWSARDGVNIGVERLTTVSGPEWNLCPLPPIDLR
NMEPASEPTIGDMIEFYEGHIYHYSIYIGQGKTVGVHSPQAAFSVARVTIQPIAAWWR
VCYIPQPKHRLSYDQLKELENEPWPYAAITNNCFEFCCQVMNLEDTWLQRRLVTSGRF
HHPTQSWSQQTPEFQQDSKLELVRDAILAAVNGLVSQPFKNFLGKLKPLNVLNILSNC
DWTFMGVVEMVILLLELFGVFWNPPDVSNFIASLLPDFHLQGPEDLARDLVPVILGGI
GLAIGFTRDKVTKVMKSAVDGLRAATQLGQYGLEIFSLLKKYFFGGDQTERTLKGIEA
AVIDMEVLSSTSVTQLVRDKQAAKAYMNILDNEEEKARKLSAKNADPHVISSTNALIS
RISMARSALAKAQAEMTSRMRPVVIMMCGPPGIGKTKAAEHLAKRLANEIRPGGKVGL
VPREAVDHWDGYHGEEVMLWDDYGMTKIQDDCNKLQAIADSAPLTLNCDRIENKGMQF
VSDAIVITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEVEQIRRVSPGDTSALKDCF
KPDFSHLKMELAPQGGFDNQGNTPFGRGIMKPTTINRLLIQAVALTMERQDEFQLQGK
MYDFDDDRVSAFTTMARDNGLGILSMAGLGKKLRGVTTMEGLKNALKGYKISACTIKW
QAKVYSLESDGNSVNIKEERNILTQQQQSVCAASVALTRLRAARAVAYASCIQSAITS
ILQIAGSALVVNRAVKRMFGTRTATLSLEGPPREHKCRVHMAKAAGKGPIGHDDVVEK
YGLCETEEDEEVAHTEIPSATMEGKNKGKNKKGRGRKNNYNAFSRRGLNDEEYEEYKK
IREEKGGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEMEIRHRVFYKSKSRKHHQ
EERRQLGLVTGSDIRKRKPIDWTPPKSAWADDEREVDYNEKISFEAPPTLWSRVTKFG
SGWGFWVSSTVFITTTHVIPTSAKEFFGEPLTSIAIHRAGEFTLFRFSKKIRPDLTGM
ILEEGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRIQGRLVHGQSGMLLTGANAKG
MDLGTIPGDCGAPYVYKRANDWVVCGVHAAATKSGNTVVCAVQASEGETTLEGGDKGH
YAGHEIIKHGCGPALSTKTKFWKSSPEPLPPGVYEPAYLGGRDPRVTGGPSLQQVLRD
QLKPFAEPRGRMPEPGLLEAAVETVTSSLEQVMDTPVPWSYSDACQSLDKTTSSGFPY
HRRKNDDWNGTTFIRELGEQAAHANNMYEQAKSMKPMYTAALKDELVKPEKVYQKVKK
RLLWGADLGTVVRAARAFGPFCDAIKSHTIKLPIKVGMNSIEDGPLIYAEHSKYKYHF
DADYTAWDSTQNRQIMTESFSIMCRLTASPELASVVAQDLLAPSEMDVGDYVIRVKEG
LPSGFPCTSQVNSINHWLITLCALSEVTGLSPDVIQSMSYFSFYGDDEIVSTDIEFDP
AKLTQVLREYGLKPTRPDKSEGPIIVRKSVDGLVFLRRTISRDAAGFQGRLDRASIER
QIYWTRGPNHSDPFETLVPHQQRKVQLISLLGEASLHGEKFYRKISSKVIQEIKTGGL
EMYVPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV"
mat_peptide <1..951
/gene="ORF1"
/product="p48"
mat_peptide 952..2040
/gene="ORF1"
/product="NTPase"
mat_peptide 2041..2637
/gene="ORF1"
/product="p22"
mat_peptide 2638..3051
/gene="ORF1"
/product="VPg"
mat_peptide 3052..3594
/gene="ORF1"
/product="Pro"
mat_peptide 3595..5118
/gene="ORF1"
/product="RdRp"
gene 5105..6745
/gene="ORF2"
CDS 5105..6745
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCT04934.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ
LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST
PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
gene 6745..7380
/gene="ORF3"
CDS 6745..7380
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCT04935.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG
TRVAAPRSSATTLRSGGFMAVPMPVQPKSKALQSSGFSNPAYDTSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
ORIGIN
1 caggaggagg tccagtatgg tatggggtgg tccaacaggc ccattgatca gaacgtcaaa
61 tcatgggaag agcttgacac cacagttaag gaagagatcc tagacaacca caaagaatgg
121 tttgacgctg gtggtttggg cccttgcaca atgcctccaa catatgaacg ggtcagggac
181 gacagtccac ctggtgaaca ggttaaatgg tccgcacgtg atggagttaa cattggagtg
241 gaacgcctca cgacagtgag tgggcctgag tggaatcttt gccccttacc ccccatcgat
301 ttgaggaaca tggaaccagc tagtgaaccc actattggag atatgataga attctacgaa
361 ggccacatct atcattactc catatacatt gggcaaggca aaacagtcgg cgtccattct
421 ccacaggcgg cattttcagt ggctagagtg accatccagc ccatagccgc ttggtggaga
481 gtttgttaca taccccaacc caagcataga ctgagttacg accaactcaa ggaactagag
541 aatgagccat ggccatacgc ggccataacc aataattgtt ttgaattctg ctgtcaagtc
601 atgaatcttg aggacacgtg gttgcaaagg cgactggtca cgtcgggcag attccaccac
661 cccacccagt cgtggtcaca gcagacccct gagttccaac aagatagcaa gttagagttg
721 gttagggacg ccatattggc tgcagtgaat ggtcttgttt cgcagccctt taagaacttc
781 ttgggtaaac tcaaacccct caatgtgctt aacatcctgt ctaactgtga ttggaccttc
841 atgggggtgg tggaaatggt catactacta cttgaactct ttggtgtgtt ctggaacccg
901 cctgatgtat ccaattttat agcgtccctt cttcctgatt tccatcttca gggacctgaa
961 gacttggcac gagatctagt cccagtgatt cttggtggta taggattagc cattgggttc
1021 accagagaca aagttacaaa ggtcatgaag agtgctgtgg atggtcttcg agctgccaca
1081 caactgggac agtatggatt agaaatattc tcactgctca agaagtactt ctttgggggg
1141 gaccagactg agcgcaccct caaaggcatt gaggcagcag tcatagatat ggaggtactg
1201 tcctccactt cagtgacaca gctagtgagg gacaaacagg cagcaaaggc ctatatgaac
1261 atcttggaca atgaagaaga gaaggccagg aagctctctg ctaaaaacgc tgacccacat
1321 gtgatatcct caacaaatgc cctaatatcg cgcatatcca tggcacgatc tgcattggcc
1381 aaggctcagg ctgagatgac cagtcgaatg cgaccagttg tcattatgat gtgtggccca
1441 cctgggattg ggaagaccaa ggctgctgag cacctagcta agcgtctagc caatgagatc
1501 agaccaggtg gtaaggtggg gttggttccc cgtgaagctg tcgaccactg ggacggttat
1561 catggtgagg aagtgatgct gtgggatgac tatggcatga caaaaataca agacgactgt
1621 aataaactcc aggccattgc tgattcggcc cccctcacat taaattgtga taggattgaa
1681 aataaaggaa tgcagttcgt ttcagatgca atagtcatca ccaccaacgc cccaggcccc
1741 gcccctgtgg actttgtcaa ccttggacca gtgtgtagac gggtcgactt tttggtgtat
1801 tgctctgccc cagaggtgga gcagatacgg agagtcagcc ctggcgacac atcagcactg
1861 aaggactgct tcaagccaga tttctcacat ttaaaaatgg agctggctcc acaaggtggg
1921 tttgacaatc aagggaacac accgtttggc aggggcatca tgaagccaac aaccattaat
1981 agactcctca tacaagccgt ggcccttacc atggaaaggc aggatgagtt ccagttgcag
2041 gggaagatgt atgactttga tgatgacagg gtgtcagcgt ttaccaccat ggcacgtgac
2101 aatggcctgg gcatcttgag catggcgggt ctgggtaaga agttacgcgg tgtcacaacg
2161 atggagggct tgaagaatgc cctgaaggga tacaaaatta gtgcgtgcac gataaaatgg
2221 caggctaaag tgtactcact agagtcagat ggcaacagtg tcaacattaa agaggagagg
2281 aacatcttaa ctcaacaaca acagtcagtg tgtgctgcct ctgtcgcgct cactcgcctc
2341 cgggctgcgc gtgcggtggc atacgcgtca tgcatccaat cggctataac ttctatacta
2401 caaattgctg gctcagccct agtggtcaac agagcagtga agagaatgtt tggcacgcgt
2461 actgccaccc tgtcccttga gggccccccc agagaacaca aatgcagggt ccacatggcc
2521 aaggccgcag gaaaggggcc tattggccat gatgatgtgg tagaaaagta tgggctttgt
2581 gaaactgagg aggacgaaga agtggcccac actgaaatcc cttctgccac tatggagggc
2641 aagaataaag ggaagaacaa gaaaggacgt ggtcggaaga acaactacaa cgccttctcc
2701 cgcaggggac tcaatgatga agagtacgaa gagtacaaga agatacgcga ggagaaaggt
2761 ggcaattata gcatacagga gtacctagag gataggcaaa ggtatgaaga agagctagca
2821 gaggttcaag caggtggaga tggaggaatc ggggaaactg aaatggaaat ccgccacaga
2881 gtgttctaca aatctaagag tagaaagcat caccaggaag agcgacgcca gctagggctg
2941 gtgacaggtt ccgacattcg gaagagaaaa ccaatcgact ggaccccacc caagtcagca
3001 tgggcagatg atgagcgtga ggtggattac aatgagaaga tcagttttga ggcgccccct
3061 actttatgga gcagagtgac aaagtttggg tctggatggg gtttctgggt cagctctaca
3121 gtcttcataa ccacaacgca cgtcatacca accagtgcga aggaattctt tggtgaaccc
3181 ctaaccagca tagccatcca cagggctggt gagttcactc tattcaggtt ctcaaagaaa
3241 attaggcctg acctcacagg tatgatcctt gaggagggtt gccccgaggg cacagtgtgt
3301 tcagtgctaa taaaaaggga ctctggtgaa ctactgccat tggctgtaag aatgggcgca
3361 atagcatcaa tgcgtataca gggccgcctt gttcatgggc agtccggcat gctgctcacc
3421 ggggctaatg ctaagggcat ggaccttgga accatcccag gagactgtgg ggctccttat
3481 gtctataaga gagccaacga ctgggtggtc tgtggtgtac acgctgctgc caccaaatca
3541 ggcaacaccg ttgtgtgcgc cgttcaggcc agtgaaggag aaaccacgct tgaaggcggt
3601 gacaaaggac actatgctgg acatgaaata attaagcatg gttgtggacc agccctgtca
3661 accaaaacca aattctggaa atcatcccct gaaccactac cccctggggt ctatgaaccc
3721 gcctacctcg ggggccggga ccctagggta actggcggtc cctcactcca acaggtgttg
3781 cgggaccaat taaagccatt tgctgagcca cgaggacgca tgccagagcc aggtctcttg
3841 gaggccgcag ttgagactgt gacttcatca ttagagcagg ttatggacac tcccgtccct
3901 tggagttata gtgatgcgtg ccagtccctt gacaagacca ctagttctgg ctttccctac
3961 cacagaagga agaacgacga ctggaatggc accaccttca tcagggagtt aggggagcag
4021 gcagcacatg ctaataacat gtatgaacag gctaaaagta tgaaacccat gtacacggca
4081 gcgctcaaag atgaactagt caaaccagag aaggtatacc aaaaagtgaa gaagcgcttg
4141 ttatgggggg cagacttggg cacggtggtt cgggccgcgc gggcttttgg tccattctgt
4201 gatgctataa aatcccacac aatcaaattg cccattaaag ttggaatgaa ttcaattgag
4261 gatgggccac tgatctatgc agaacattca aagtataagt accattttga tgcagattac
4321 acagcttggg attcaactca aaatagacaa atcatgacag agtcattctc aatcatgtgt
4381 cgactaactg catcacctga actagcttca gtggtagctc aagatttgct tgcaccttca
4441 gagatggatg ttggcgacta tgtcataaga gtgaaggaag gcctcccatc tggttttcca
4501 tgtacatcac aggttaatag tataaaccat tggttaataa ctctgtgtgc cctttctgaa
4561 gtaactggtc tgtcgccaga tgtcatccag tccatgtcat atttctcttt ctatggtgat
4621 gatgaaatag tgtcaactga catagaattt gacccagcaa aactgacaca agtcctcaga
4681 gagtatggac ttaaacccac ccgccccgac aaaagcgagg gcccaataat tgtgaggaag
4741 agtgtggatg gtttggtctt tttgcgtcgc actatctccc gcgacgccgc aggattccag
4801 gggcgactgg accgggcatc cattgaaaga caaatctact ggactagagg acccaaccat
4861 tcagatcctt ttgagaccct ggtgccacac caacaaagga aggtccaatt aatatcatta
4921 ttgggtgagg cctcactgca tggtgaaaag ttttacagga agatttcaag taaagtcatc
4981 caggaaatta aaacaggggg ccttgaaatg tatgtgccag gatggcaagc catgttccgt
5041 tggatgcggt tccatgacct tggtttgtgg acaggagatc gcaatctcct gcccgaattt
5101 gtaaatgatg atggcgtcta aggacgcccc tcaaagcgct gatggcgcaa gcggcgcagg
5161 tcaactggtg ccggaggtta atacagctga ccccttaccc atggaacctg tggctgggcc
5221 aacaacagcc gtagccactg ctgggcaagt taatatgatt gatccctgga ttgttaataa
5281 ttttgtccag tcaccccaag gtgagttcac aatctctcct aataataccc ccggtgatat
5341 tttgtttgat ttacaattgg gtccacacct aaaccctttc ttgtcacatt tgtcccaaat
5401 gtacaatggc tgggttggga acatgagagt cagaattctc cttgctggga atgcattctc
5461 agctggaaag attatagttt gttgtgtccc ccctggcttt acatcttctt ctctcaccat
5521 agctcaggct acattgtttc cccatgtaat tgctgatgtg agaacccttg agccaataga
5581 aatgcccctc gaagatgtac gtaatgtcct ctatcacacc aatgataatc aaccaacaat
5641 gcggctggtg tgtatgctat acacgccgct ccgcactggt ggggggtctg gtagttctga
5701 ttcctttgta gtcgctggca gggttctcac agcccctagc agcgacttca gtttcttgtt
5761 ccttgtcccg cctaccatag agcagaagac tcgggctttc actgtgccta atatcccctt
5821 gcaaaccttg tccaactcta ggtttccttc cctcatccag gggatgattc tgtcccccga
5881 tgcatctcaa gtggtccaat tccaaaatgg gcgttgcctt atagatggtc aactcttagg
5941 cactacaccc gctacatcag gacagctgtt cagagtaaga ggaaagataa atcagggagc
6001 ccgtacactt aacctcacag aggtggatgg taaaccattc atggcatttg attcccctgc
6061 acctgtgggg ttccccgatt ttgggaaatg tgattggcac atgagaatta gcaaaacccc
6121 aaacaacaca agttcaggtg accccatgcg cagtgtcagc gtgcaaacca atgtgcaggg
6181 ttttgtgcca cacttgggaa gtatacaatt tgatgaagtg tttaatcatc ccacaggtga
6241 ctacattggc accattgaat ggatttccca gccatctaca ccccctggaa cagatattaa
6301 tctgtgggag atccccgatt atgggtcatc cctttcccaa gcagctaatc tggccccccc
6361 agtgttcccc cctggatttg gtgaggccct tgtatacttt gtttctgctt tcccgggccc
6421 caataaccgc tcagccccga atgatgtacc ctgtcttctc cctcaagagt acataaccca
6481 ctttgtcagt gaacaagccc caacgatggg tgacgcagct ttactgcatt atgtcgaccc
6541 tgataccaac aggaaccttg gggagttcaa gctataccct ggaggttacc tcacctgtgt
6601 accaaacggg gtaggtgccg ggcctcaaca gctccctctc aatggtgttt ttctctttgt
6661 ttcttgggtg tctcgttttt atcagcttaa gcctgtggga acagccagta cggcaagagg
6721 taggctcgga gtacgccgta tataatggcc caagccatca taggagcaat tgccgcgtca
6781 gctgcaggct cagcattggg tgcgggcatc caggctggtg ccgaggctgc gcttcagagt
6841 caaagatacc aacaagactt agccctgcaa aggaatactt ttgaacatga taaggatatg
6901 ctttcctacc aggtccaggc aagtaatgca cttttggcaa agaatctcaa tacccgctat
6961 tctatgcttg ttgcaggggg tctttctagt gctgatgctt ctcgggctgt tgctggggcc
7021 cctgtaacac aattgattga ttggaacggc actcgggttg ccgcccccag atcaagtgca
7081 acaactctga ggtctggtgg tttcatggca gtccccatgc ctgttcaacc caaatctaag
7141 gccctgcaat cctctgggtt ttctaatcct gcttatgaca cgtccacagt ttcttctagg
7201 acttcttctt gggtgcagtc acagaattcc ctgcgaagtg tgtcaccctt tcataggcag
7261 gcccttcaaa ctgtgtgggt tactccacct gggtctactt cctcttcttc tgtttcctca
7321 acaccttatg gtgtttttaa tacggatagg atgccgctat tcgcaaattt gcggcgttaa
7381 tgttgtaata taatgcagca gtgggcacta tattcaattt ggtttaatta gtg
//