Typing tool
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Typing tool
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Complete norovirus genomes
| MK956175 | GI.1 | |
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| GI.P1 |
ORF1: 1..5288
ORF2: 5272..6864
ORF3: 6864..7363
LOCUS MK956175 7363 bp RNA linear VRL 12-NOV-2019
DEFINITION Norovirus GI isolate G19-003 nonstructural polyprotein (ORF1) gene,
partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3) gene,
partial cds.
ACCESSION MK956175
VERSION MK956175.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7363)
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 7363)
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..7363
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="G19-003"
/isolation_source="sewage"
/db_xref="taxon:122928"
/country="France: Nantes"
/collection_date="22-Mar-2018"
/note="genotype: GI.1-GI.P1"
gene <1..5288
/gene="ORF1"
CDS <1..5288
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QCT04924.1"
/translation="LARLKGVSGTTTPPNSIQITNQSMALGLIGQAPAPKATAVETPK
QQRDRPPRTVAEVQQNLCWTEKPLDQNVKAWDELDHTTKQQILDEHAEWFDAGGLGPS
TLPSNHERHSNDDSGGHQVKWSAKEGVNLGIGGLTTVPGPEWNMCPLPPADQRSTTPA
VEPIIGDMIEFYEGHIYHYAIYIGQGKTVGVHSPQAAFSITRITIQPISAWWRICYVP
QPKQRLTYDQLKELENEPWPYAAVTNNCFEFCCQVMCLDDTWLQRKLISSGRFHHPTQ
DWSRDTPEFQQDSKLEMVRDAVLAAINGLVSRPFKDLLGKLKPLNVLNLLSNCDWTFM
GVVEMVVLLLELFGVFWNPPDVSNFIASLLPDFHLQGPEDLARDLVPVVLGGIGLAIG
FTRDKVSKMMKNAVDGLRAATQLGQYGLEIFSLLKKYFFGGDQTEKTLKDIESAVIDM
EVLSSTSVTQLVRDKQSARAYMAILDNEEEKARKLSVRNADPHVVSSTNALISRISMA
RAALAKAQAEMTSRMRPVVIMMCGPPGIGKTKAAEHLAKRLANEIRPGGKVGLVPREA
VDHWDGYHGEEVMLWDDYGMTKIQEDCNKLQAIADSAPLTLNCDRIENKGMQFVSDAI
VITTNAPGPAPVDFVNLGPVCRRVDFLVYCTAPEVEHTRKVSPGDTNALKDCFKPDFS
HMKMELAPQGGFDNQGNTPFGKGTMKPTTINRLLIQAVALTMERQDEFQLQGPTYDFD
TDRVSAFTKMARANGIGLISMASLGKKLRGVSTIEGLKNALLGYKIAKCSIQWQSRVY
IIESDGGNVHIKEDKQALTPSQQAINTASLAITRLKAARAVAYASCFQSAVTTILQMA
GSALVINRAVKRMFGTRTAAMALEGPEKEHNCRVHKAKEAGKGPIGHDDMIEKFGLCE
TEEEESEDQIQITPNDAIPEGKNKGKTKKGRGRKNNYNAFSRRGLSDEEYEEYKKIRE
EKNGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEMEIRHRVFYKSKSRKHQQEQR
RQLGLVTGSDIRKRKPIDWTPPKNEWADDDREVDYNEKINFEAPPTMWSRVTKFGSGW
GFWVSPTVFITTTHVVPTGVKEFFGEPLTNIAIHQAGEFTQFRFSKKIRPDLTGMVLE
EGCPEGTVCSVLIKRDSGELLPLAVRMGAIASMRIQGRLVHGQSGMLLTGANAKGMDL
GTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVCAVQASEGETALEGGDKGHYAG
HEIVRHGNGPALSTKTKFWRSSPEPLPPGVYEPAYLGGRDPRVQNGPSLQQVLRDQLK
PFAEPRGRMPEPGLLEAAVETVTSVLEQTMDTPSPWSYADACQSLDKTTSSGFPYHKR
KNDDWNGTTFVRELGDQAAHANNMYENGKHMKPIYTAALKDELVKPEKVYQKIKKRLL
WGADLGTVIRAARAFGPFCDAIKPHVIKLPIKVGMNTIEDGPLIYAEHAKYKNHFDAD
YTAWDSTQNRQIMTESFSIMSRLTASPELAEVVAQDLLAPSEMDVGDYVIRVKEGLPS
GFPCTSQVNSINHWIITLCALSEATGLSPDVVQAMSYFSFYGDDEIVSTDIDFDPARL
TQILKEYGLRPTRPDKTEGPIQVRKNVDGLVFLRRTISRDAAGFQGRLDRASIERQIF
WTRGPNHSDPSETLVPHTQRKVQLISLLGEASLHGEKFYRKISSKVIHEIKTGGLEMY
VPGWQAMFRWMRFHDLGLWTGDRNLLPEFVNDDGV"
mat_peptide <1..1112
/gene="ORF1"
/product="p48"
mat_peptide 1113..2201
/gene="ORF1"
/product="NTPase"
mat_peptide 2202..2804
/gene="ORF1"
/product="p22"
mat_peptide 2805..3218
/gene="ORF1"
/product="VPg"
mat_peptide 3219..3761
/gene="ORF1"
/product="Pro"
mat_peptide 3762..5285
/gene="ORF1"
/product="RdRp"
gene 5272..6864
/gene="ORF2"
CDS 5272..6864
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCT04925.1"
/translation="MMMASKDATSNVDGASGAGQLVPEANTSDPLAMDPVAGSSTAGA
TAGQVNPIDPWIINNFVQAPQGEFTISPNNTPGDVLFDLSLGPHLNPFLLHLSQMYNG
WVGNMRVRIMLAGNAFTAGKIIVSCIPPGFGSHNLTIAQSTLFPHVIADVRTLDPIEV
PLEDVRNVLFHNNDRNQQTMRLVCMLYTPLRTGGGTGDSFVVAGRVMTCPSPDFNFLF
LVPPTVEQKTRPFTLPNLPLSSLSNSRAPLPIGSMGISPDNVQSVQFQNGRCTLDGRL
VGTTPVSLSQVAKIRGTSNGTVINLTELDGTPFHPFEGPAPIGFPDLGGCDWHVNMTQ
FGHSSQTQFDVDTTPETFVPHLGSIQANGIGSGNYIGVLSWISPPSHPSGSQVDLWKI
PNYGSSVTEATHLAPSVFPPGFGEVLVFFMSKMPGPGAYNLPCLLPQEYISHFASEQA
PTVGEAALLHYVDPDTGRNLGEFKAYPDGFLTCVPNGASSGPQQLPINGVFVFVSWVS
RFYQLKPVGTASSARGRLGLRR"
gene 6864..>7363
/gene="ORF3"
CDS 6864..>7363
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCT04926.1"
/translation="MAQAIIGAIAASTAGSALGAGIQVGGEAALQSQRYQQNLQLQEN
SFKHDKEMIGYQVEASNQLLAKNLATRYSLLRAGGLSSADAARSIAGAPVTRIVDWNG
VRVSAPESSATTLRSGGFMSVPIPYTSKQKQIQPSGISNPNYSPSSISRTTSWVESQN
SSRFGNL"
ORIGIN
1 tattggcgag actcaaaggt gtgagtggaa caacgactcc acctaattct atacaaataa
61 ctaaccaaag tatggctctg gggctaattg gccaggcccc agctccaaag gccacagccg
121 tggagacccc taaacaacag agggatagac ctccacggac tgtcgccgaa gtccaacaaa
181 atttatgttg gaccgagaag ccgctagacc aaaatgtcaa ggcgtgggac gaattggacc
241 acacaacaaa acaacaaata cttgatgagc atgctgaatg gtttgatgct ggtggcttag
301 gcccaagcac acttcctagc aaccatgaac gtcactcaaa tgatgacagt ggaggccatc
361 aagtgaaatg gtcggctaaa gagggtgtga atctcgggat aggagggctc acaaccgttc
421 ccgggcccga gtggaacatg tgcccgctac ccccagcgga tcaaaggagt acgacacctg
481 cagtcgagcc cataataggt gatatgatcg aattttatga aggtcatatc taccattatg
541 ccatttatat cggccaaggc aagacagtgg gtgtccactc tcctcaagca gcattctcaa
601 taacaagaat cactatacaa cctatatcag catggtggcg gatatgttat gtcccacagc
661 caaaacagag acttacatat gaccaactca aagaattgga gaacgaacca tggccatacg
721 ctgcagttac taataactgc tttgaattct gctgccaggt catgtgtcta gacgacacct
781 ggctacaaag aaagctcatc tcctctggac ggttccacca tccaacccag gactggtctc
841 gggacactcc agagttccaa caagacagca aacttgagat ggtcagagat gcagtgctgg
901 ccgcgataaa tgggctagtg tcgcggccct ttaaggatct cctaggcaaa ctcaaacctt
961 tgaatgtgct caatttactt tcaaattgtg actggacatt tatgggggtc gtggaaatgg
1021 tggtcctcct tttggagctt tttggggtgt tctggaaccc acctgatgtg tctaacttca
1081 tagcttcact cctaccagat ttccatctac agggccctga agatcttgct agagacctcg
1141 tgccagtggt cttgggtggt attggtctgg ctataggatt tactagggac aaggtgagta
1201 aaatgatgaa aaatgctgtt gacggactgc gggctgcgac tcagctcgga cagtacggcc
1261 tggaaatatt ctcactatta aagaagtact tctttggtgg agaccagaca gagaagaccc
1321 taaaagatat agagtcagct gttattgaca tggaagtgct gtcgtccact tcagtgaccc
1381 aactcgtgag ggataagcag tctgcgcggg cttacatggc tatcttggat aatgaagaag
1441 aaaaagctag aaagctgtcc gttaggaatg ctgacccaca tgtggtatcc tccaccaatg
1501 ctctcatatc tcggatatca atggccagag ccgccctagc caaggcccag gctgagatga
1561 ctagtaggat gcgtcctgtg gttattatga tgtgtgggcc ccctggcata ggaaaaacca
1621 aagcagcgga acatctggcc aaacgattgg ccaacgagat acggcctggc ggcaaagttg
1681 ggctagttcc acgtgaggca gtggaccatt gggatggcta tcatggtgaa gaggtgatgt
1741 tatgggatga ctatgggatg accaaaatac aggaggattg caacaaacta caggccatag
1801 ctgactcggc ccccttgacg ctcaactgtg accgaataga gaacaaaggg atgcaattcg
1861 tatctgatgc tatagtcata accaccaatg cccctggccc agcccccgta gactttgtca
1921 acctcggacc ggtctgccgg agggtggact tccttgtgta ctgtacggca ccagaagtgg
1981 aacacacaag gaaagttagt ccaggcgaca ctaatgcact aaaggattgt tttaaacctg
2041 atttctctca catgaaaatg gaactggccc cccagggtgg ttttgataac caagggaaca
2101 ctccatttgg taagggtaca atgaagccaa ccaccataaa tagattgtta atccaggctg
2161 tggcattgac aatggagagg caggacgagt tccaactcca aggtcctact tatgactttg
2221 acactgatag ggtctctgca tttactaaga tggcccgagc taatgggata ggtcttatat
2281 ccatggcctc cctgggcaag aaattgcgtg gggtttccac cattgaaggc ttgaagaatg
2341 cccttctagg atacaagata gcaaagtgca gtatacagtg gcagtcaagg gtgtacatca
2401 tagaatcaga tggtggcaat gtacacatca aggaggacaa gcaggctcta actccttcac
2461 agcaggcaat taacacagcc tccctggcca tcacacgact caaggcggct agggctgtag
2521 cttacgcctc atgttttcaa tctgccgtca ccaccatact acaaatggca gggtctgctc
2581 tggtcatcaa tcgggcagtt aagcgcatgt ttggcacccg tacggcagcc atggcgctag
2641 agggaccaga aaaggaacat aattgtaggg ttcataaagc taaggaagct ggaaaggggc
2701 ctataggaca tgatgacatg atagaaaagt ttggtctgtg tgagactgaa gaggaagaaa
2761 gtgaagatca aatccaaata accccaaatg atgccattcc agaggggaag aacaaaggta
2821 agaccaagaa gggccgcggc cgcaaaaata attacaatgc attctcccga cgtgggttga
2881 gtgatgagga gtatgaagaa tacaagaaga tcagggaaga gaagaatggt aattacagca
2941 tacaagagta tctggaggat cgtcaacggt acgaggaaga gttagcagag gttcaagcag
3001 gtggtgacgg tggcatagga gagactgaga tggagattcg ccacagagtt ttctacaaat
3061 ccaaaagcag aaaacaccaa caagagcagc gacgtcaact tggcctagta actggatcgg
3121 acatcaggaa acgcaaacct attgattgga ccccaccaaa gaatgaatgg gccgatgatg
3181 atagggaagt tgactacaat gaaaagatca attttgaggc ccccccaaca atgtggagcc
3241 gggtcacaaa gtttgggtca gggtggggct tctgggtcag tccaaccgtg ttcatcacca
3301 ccacgcatgt ggtgccaact ggcgtgaagg aattctttgg cgaacccctc accaacatag
3361 caatccatca agcaggtgag ttcacacagt tcaggttttc caaaaagata cgccctgacc
3421 tgacgggcat ggtgttggag gaagggtgcc ctgaaggaac agtctgttca gtcctaatca
3481 aacgagactc gggcgagctt ctccctctag ctgtccgtat gggggctatt gcctctatga
3541 ggatacaggg tcgccttgtt catggccaat caggtatgct attgacagga gcgaatgcaa
3601 aaggaatgga ccttggaact ataccagggg actgtggagc accatacgtc cacaagcgcg
3661 gtaatgactg ggtcgtgtgt ggggtccatg ctgcagccac aaaatcaggt aacactgtgg
3721 tctgtgctgt gcaggctagt gaaggtgaga ccgcattaga aggcggagac aaggggcatt
3781 atgcgggtca tgaaattgta aggcacggga atggcccagc attgtcaact aaaacaaagt
3841 tctggagatc ctccccagag ccattgcccc ctggtgttta tgaacctgca tacctaggag
3901 gaagggaccc tcgtgtccaa aatggcccct ccctccaaca ggttctgcgt gaccaattga
3961 aacccttcgc agaaccccgt ggtcgcatgc ctgagcccgg tttgctggag gcagcagttg
4021 aaactgtaac atccgtgtta gagcaaacaa tggatactcc aagcccatgg tcttatgctg
4081 acgcttgtca atctcttgat aaaactacaa gttcaggctt tccctaccac aagaggaaga
4141 atgatgattg gaacggcacc acctttgtca gggagcttgg cgatcaggcc gcacatgcta
4201 acaacatgta tgagaatggt aaacacatga aacccatcta cacagcagct ttgaaggatg
4261 agctagtcaa acccgaaaag gtctaccaaa agatcaaaaa gcgcctgtta tggggtgctg
4321 atctcgggac tgtaatcaga gctgcccgag cttttggccc attttgtgat gctataaagc
4381 cacatgtcat taagctacca ataaaggttg gtatgaacac aatagaagat ggccccctaa
4441 tttatgctga gcatgccaag tacaaaaacc actttgacgc ggattatacg gcatgggatt
4501 caacacagaa cagacaaatt atgacagaat ctttctccat tatgtcacgc cttacggcct
4561 cccccgagtt ggccgaagtc gtggctcagg atttattggc accatctgag atggatgtgg
4621 gtgactatgt cataagagtt aaggaaggct taccatctgg gttcccgtgt acttcccaag
4681 tgaacagcat aaatcattgg ataattaccc tctgtgcact ttctgaagcc actggtctgt
4741 cacctgacgt agtgcaagcc atgtcatact tttcatttta tggtgatgat gagattgtgt
4801 caactgacat agattttgac ccagctcgtc tcacccaaat ccttaaggaa tatggcctta
4861 gaccaacaag gccagacaaa actgaaggtc caatacaggt caggaaaaat gtggatggat
4921 tagttttctt gcgccgcacc atctcccgcg acgctgcagg gttccagggc agattggaca
4981 gggcctcaat tgagcggcag attttctgga cccgcgggcc caatcattca gatccttcag
5041 agaccttagt accacacacc caaagaaaag tgcaattaat ctcactattg ggagaggctt
5101 cactccatgg agaaaagttc tacagaaaga tttccagcaa agtcatacat gaaatcaaga
5161 ctggtggatt ggagatgtat gttccagggt ggcaggccat gttccgctgg atgcgcttcc
5221 atgacctcgg attgtggaca ggagatcgca atctcctgcc cgaattcgta aatgatgatg
5281 gcgtctaagg acgctacgtc aaacgtggat ggcgccagcg gcgctggtca gttggtaccg
5341 gaggctaata cttctgaccc ccttgcaatg gatcctgtgg cgggttcttc gacagcgggt
5401 gcgactgctg gacaagtaaa ccccattgat ccttggataa ttaacaattt tgtgcaagct
5461 ccccaagggg aatttacaat ctccccaaat aatacccccg gtgatgtttt atttgatctg
5521 agtttaggtc cccatcttaa ccccttcttg ctacatctgt cacaaatgta taatggttgg
5581 gttggcaata tgagagttag gattatgctg gccggtaatg ctttcactgc aggtaagatc
5641 atagtctcct gtatacctcc tggttttgga tcgcataatc tcactatagc acaatcaact
5701 ctgttcccac atgtgattgc tgatgtcagg actctagacc ctatagaagt gcctttggaa
5761 gatgttagaa atgtcctttt ccataataat gataggaatc aacaaaccat gcgccttgtg
5821 tgcatgttgt acacccctct ccgcactggt ggcggtacag gtgattcctt tgttgtggcg
5881 gggcgggtta tgacctgccc tagtcctgat tttaatttct tgttcctggt tccccccaca
5941 gtggagcaga aaactagacc tttcaccctt ccaaatttgc ctttgagctc tttgtccaat
6001 tcacgtgctc ctcttccaat tggcagcatg ggcatctctc cagacaatgt ccagagtgta
6061 cagttccaaa atggtcgatg tactttggac ggccgtttgg ttggtaccac cccagtttca
6121 ctatcccagg ttgctaagat aaggggcact tcaaatggta ctgttatcaa cctcaccgaa
6181 ttggatggta caccctttca cccttttgag ggccctgccc ccattggatt cccagatctc
6241 ggtggttgtg attggcacgt taatatgaca caatttggcc attctagtca gacacaattt
6301 gatgtggata ccacccctga aaccttcgtc cctcatttag gatcaatcca ggcaaatggt
6361 attggtagtg gcaattacat tggtgttctc agttggatct cccctccatc acatccctct
6421 ggttcccagg tagatctttg gaagatcccc aactatgggt cgagtgttac tgaggcaaca
6481 cacctggccc catcagtgtt cccacccggc ttcggggaag tgctggtttt cttcatgtca
6541 aagatgccag ggcctggcgc ctacaatctg ccctgtttgt tgccacaaga gtacatctca
6601 cattttgcaa gtgagcaagc ccccactgtg ggtgaggctg ctctactcca ttatgttgat
6661 cctgatacag ggcggaacct tggggagttc aaagcatatc ccgatggatt cctcacttgt
6721 gtccccaatg gagccagctc gggtccacaa caattaccaa tcaatggggt ttttgttttt
6781 gtctcttggg tgtctaggtt ctatcaattg aagcctgtgg gaactgccag ctcggcaaga
6841 ggtaggcttg gactgcgccg ataatggccc aagctataat tggcgcaatt gctgcctcca
6901 cagcgggtag tgcccttgga gcaggcatac aggttggtgg tgaagcagca ctccaaagtc
6961 aaagatacca acagaatttg caactgcaag agaattcctt caaacatgac aaagaaatga
7021 ttggatatca ggttgaggct tcaaatcaat tgctagccaa gaatctggca accagatact
7081 cactcctccg tgctggaggc ctatccagtg ctgatgcagc aaggtccata gcgggagccc
7141 cagtgacccg aatcgtggac tggaacggtg tgagggtgtc agcccctgag tcttctgcaa
7201 ccacattgag gtctggtggc tttatgtcgg tgccaatacc atatacatct aaacagaaac
7261 aaatccaacc atctggtatt agtaatccaa attattctcc ttcttccatt tctcgaacca
7321 ctagttgggt tgaatcacaa aattcatcaa gatttgggaa tct
//