Typing tool
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Typing tool
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Complete norovirus genomes
| MN416764 | GI.2 | |
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| GI.P2 |
ORF1: 1..5062
ORF2: 5046..6686
ORF3: 6686..7321
LOCUS MN416764 7362 bp RNA linear VRL 31-DEC-2019
DEFINITION Norovirus GI isolate G19_046 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MN416764
VERSION MN416764.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7362)
AUTHORS Strubbia,S., Schaeffer,J. and Le Guyader,F.S.
TITLE Metagenomic to detect norovirus and Human enteric viruses in
oysters: impact on hexamer selection and targeted capture-based
enrichment
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7362)
AUTHORS Strubbia,S., Schaeffer,J. and Le Guyader,F.S.
TITLE Direct Submission
JOURNAL Submitted (06-SEP-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..7362
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="G19_046"
/isolation_source="digestive tissue"
/host="shellfish"
/db_xref="taxon:122928"
/country="France"
/collection_date="11-Nov-2018"
/note="genotype: GIP2, GI.2"
gene <1..5062
/gene="ORF1"
CDS <1..5062
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QEM24798.1"
/translation="SWEELDTTVKEEILDNHKEWFDAGGLGPCTMPPTYERVRDDSPP
GEQVKWSARDGVNIGVERLTTVSGPEWNLCPLPPIDLRNMEPASEPTIGDMIEFYEGH
IYHYSIYIGQGKTVGVHSPQAAFSVARVTIQPIAAWWRVCYIPQPKHRLSYDQLKELE
NEPWPYAAITNNCFEFCCQVMNLEDTWLQRRLVTSGRFHHPTQSWSQQTPEFQQDSKL
ELVRDAILAAVNGLVSQPFKNFLGKLKPLNVLNILSNCDWTFMGVVEMVILLLELFGV
FWNPPDVSNFIASLLPDFHLQGPEDLARDLVPVILGGIGLAIGFTRDKVTKVMKSAVD
GLRAATQLGQYGLEIFSLLKKYFFGGDQTERTLKGIEAAVIDMEVLSSTSVTQLVRDK
QAAKAYMNILDNEEEKARKLSAKNADPHVISSTNALISRISMARSALAKAQAEMTSRM
RPVVIMMCGPPGIGKTKAAEHLAKRLANEIRPGGKVGLVPREAVDHWDGYHGEEVMLW
DDYGMTKIQDDCNKLQAIADSAPLTLNCDRIENKGMQFVSDAIVITTNAPGPAPVDFV
NLGPVCRRVDFLVYCSAPEVEQIRRVSPGDTSALKDCFKPDFSHLKMELAPQGGFDNQ
GNTPFGRGIMKPTTINRLLIQAVALTMERQDEFQLQGKMYDFDDDRVSAFTTMARDNG
LGILSMAGLGKKLRGVTTMEGLKNALKGYKISACTIKWQAKVYSLESDGNSVNIKEER
NILTQQQQSVCAASVALTRLRAARAVAYASCIQSAITSILQIAGSALVVNRAVKRMFG
TRTATLSLEGPPREHKCRVHMAKAAGKGPIGHDDVVEKYGLCETEEDEEVAHTEIPSA
TMEGKNKGKNKKGRGRKNNYNAFSRRGLNDEEYEEYKKIREEKGGNYSIQEYLEDRQR
YEEELAEVQAGGDGGIGETEMEIRHRVFYKSKSRKHHQEERRQLGLVTGSDIRKRKPI
DWTPPKSAWADDEREVDYNEKISFEAPPTLWSRVTKFGSGWGFWVSSTVFITTTHVIP
TSAKEFFGEPLTSIAIHRAGEFTLFRFSKKIRPDLTGMILEEGCPEGTVCSVLIKRDS
GELLPLAVRMGAIASMRIQGRLVHGQSGMLLTGANAKGMDLGTIPGDCGAPYVYKRAN
DWVVCGVHAAATKSGNTVVCAVQASEGETTLEGGDKGHYAGHEIIKHGCGPALSTKTK
FWKSSPEPLPPGVYEPAYLGGRDPRVTGGPSLQQVLRDQLKPFAEPRGRMPEPGLLEA
AVETVTSSLEQVMDTPVPWSYSDACQSLDKTTSSGFPHHRRKNDDWNGTTFIRELGEQ
AAHANNMYEQAKSMKPMYTAALKDELVKPEKVYQKVKKRLLWGADLGTVVRAARAFGP
FCDAIKSHTIKLPIKVGMNSIEDGPLIYAEHSKYKYHFDADYTAWDSTQNRQIKTESF
SIMCRLTASPELASVVAQDLLAPSEMDVGDYVIRVKEGLPSGFPCTSQVNSINHWLIT
LCALSEVTGLSPDVIQSMSYFSFYGDDEIVSTDIEFDPAKLTQVLREYGLKPTRPDKS
EGPIIVRKSVDGLVFLRRTISRDAAGFQGRLDRASIERQIYWTRGPNHSDPFETLVPH
QQRKVQLISLLGEASLHGEKFYRKISSKVIQEIKTGGLEMYVPGWQAMFRWMRFHDLG
LWTGDRNLLPEFVNDDGV"
mat_peptide <1..892
/gene="ORF1"
/product="p48"
mat_peptide 893..1981
/gene="ORF1"
/product="NTPase"
mat_peptide 1982..2578
/gene="ORF1"
/product="p22"
mat_peptide 2579..2992
/gene="ORF1"
/product="VPg"
mat_peptide 2993..3535
/gene="ORF1"
/product="Pro"
mat_peptide 3536..5059
/gene="ORF1"
/product="RdRp"
gene 5046..6686
/gene="ORF2"
CDS 5046..6686
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QEM24799.1"
/translation="MMMASKDAPQSADGASGAGQLVPEVNTADPLPMEPVAGPTTAVA
TAGQVNMIDPWIVNNFVQSPQGEFTISPNNTPGDILFDLQLGPHLNPFLSHLSQMYNG
WVGNMRVRILLAGNAFSAGKIIVCCVPPGFTSSSLTIAQATLFPHVIADVRTLEPIEM
PLEDVRNVLYHTNDNQPTMRLVCMLYTPLRTGGGSGSSDSFVVAGRVLTAPSSDFSFL
FLVPPTIEQKTRAFTVPNIPLQTLSNSRFPSLIQGMILSPDASQVVQFQNGRCLIDGQ
LLGTTPATSGQLFRVRGKINQGARTLNLTEVDGKPFMAFDSPAPVGFPDFGKCDWHMR
ISKTPNNTSSGDPMRSVSVQTNVQGFVPHLGSIQFDEVFNHPTGDYIGTIEWISQPST
PPGTDINLWEIPDYGSSLSQAANLAPPVFPPGFGEALVYFVSAFPGPNNRSAPNDVPC
LLPQEYITHFVSEQAPTMGDAALLHYVDPDTNRNLGEFKLYPGGYLTCVPNGVGAGPQ
QLPLNGVFLFVSWVSRFYQLKPVGTASTARGRLGVRRI"
gene 6686..7321
/gene="ORF3"
CDS 6686..7321
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QEM24800.1"
/translation="MAQAIIGAIAASAAGSALGAGIQAGAEAALQSQRYQQDLALQRN
TFEHDKDMLSYQVQASNALLAKNLNTRYSMLVAGGLSSADASRAVAGAPVTQLIDWNG
TRVAAPRSSATTLRSGGFMAVPMPVQPKSKALQSSGFSNPAYDTSTVSSRTSSWVQSQ
NSLRSVSPFHRQALQTVWVTPPGSTSSSSVSSTPYGVFNTDRMPLFANLRR"
ORIGIN
1 atcatgggaa gagcttgaca ccacagttaa ggaagagatc ctagacaacc acaaagaatg
61 gtttgacgct ggtggtttgg gcccttgcac aatgcctcca acatatgaac gggtcaggga
121 cgacagtcca cctggtgaac aggttaaatg gtccgcacgt gatggagtta acattggagt
181 ggaacgcctc acgacagtga gtgggcctga gtggaatctt tgccccttac cccccatcga
241 tttgaggaac atggaaccag ctagtgaacc cactattgga gatatgatag aattctacga
301 aggccacatc tatcattact ccatatacat tgggcaaggc aaaacagtcg gcgtccattc
361 tccacaggcg gcattttcag tggctagagt gaccatccag cccatagccg cttggtggag
421 agtttgttac ataccccaac ccaagcatag actgagttac gaccaactca aggaactaga
481 gaatgagcca tggccatacg cggccataac caataattgt tttgaattct gctgtcaagt
541 catgaacctt gaggacacgt ggttgcaaag gcgactggtc acgtcgggta gattccacca
601 ccccacccag tcgtggtcac agcagacccc tgagttccaa caagatagca agttagagtt
661 ggttagggac gccatattgg ctgcagtgaa tggtcttgtt tcgcagccct ttaagaactt
721 cttgggtaaa ctcaaacccc tcaatgtgct taacatcctg tctaactgtg attggacctt
781 catgggggtg gtggaaatgg tcatactact acttgaactc tttggtgtgt tctggaaccc
841 gcctgatgta tccaatttta tagcgtccct tcttcctgat ttccatcttc agggacctga
901 agacttggca cgagatctag tcccagtgat tcttggtggt attggattag ccattgggtt
961 caccagagac aaagttacaa aggtcatgaa gagtgctgtg gatggtcttc gagctgccac
1021 acaactggga cagtatggat tagaaatatt ctcactgctc aagaagtact tctttggggg
1081 ggaccagact gagcgcaccc tcaaaggcat tgaggcagca gtcatagata tggaggtact
1141 gtcctccact tcagtgacac agctagtgag ggacaaacag gcagcaaagg cctatatgaa
1201 catcttggac aatgaagaag agaaggccag gaagctctct gctaaaaacg ctgacccaca
1261 tgtgatatcc tcaacaaatg ccctaatatc gcgcatatcc atggcacgat ctgcattggc
1321 caaggctcag gctgagatga ccagtcgaat gcgaccagtt gtcattatga tgtgtggccc
1381 acctgggatt gggaagacca aggctgctga gcacctagct aagcgtctag ccaatgagat
1441 cagaccaggt ggtaaggtgg ggttggttcc ccgtgaagct gtcgaccact gggacggtta
1501 tcatggtgag gaagtgatgc tgtgggatga ctatggcatg acaaaaatac aagacgactg
1561 taataaactc caggccattg ctgactcggc ccccctcaca ttaaattgtg ataggattga
1621 aaataaagga atgcagttcg tttcagatgc aatagtcatc accaccaacg ccccaggccc
1681 cgcccctgtg gactttgtca accttggacc agtgtgtaga cgggtcgact ttttggtgta
1741 ttgctctgcc ccagaggtgg agcagatacg gagagtcagc cctggcgaca catcagcact
1801 gaaggactgc ttcaagccag atttctcaca tttaaaaatg gagctggctc cacaaggtgg
1861 gtttgacaat caagggaaca caccgtttgg caggggcatc atgaagccaa caaccattaa
1921 tagactcctc atacaagccg tggcccttac catggaaagg caggatgagt tccagttgca
1981 gggaaaaatg tatgactttg atgatgacag ggtgtcagcg tttaccacca tggcacgtga
2041 caatggcctg ggcatcttga gcatggcggg tctgggtaag aagttacgcg gtgtcacaac
2101 gatggagggc ttgaagaatg ccctgaaggg atacaaaatt agtgcgtgca cgataaaatg
2161 gcaggctaaa gtgtactcac tagagtcaga tggcaacagt gtcaacatta aagaggagag
2221 gaacatctta actcaacaac aacagtcagt gtgtgctgcc tctgtcgcgc tcactcgcct
2281 ccgggctgcg cgtgcggtgg catacgcgtc atgcatccaa tcggctataa cttccatact
2341 acaaattgct ggctcagccc tagtggtcaa cagagcagtg aagagaatgt ttggcacgcg
2401 tactgccacc ctgtcccttg agggcccccc cagagaacac aaatgcaggg tccacatggc
2461 caaggccgca ggaaaggggc ctattggcca tgatgatgtg gtagaaaagt atgggctttg
2521 tgaaactgag gaggacgaag aagtggccca cactgaaatc ccttctgcca ccatggaggg
2581 caagaataaa gggaagaaca agaaaggacg tggtcggaag aacaactaca acgccttctc
2641 ccgcagggga ctcaatgatg aagagtacga agagtacaag aagatacgcg aggagaaagg
2701 tggcaattat agcatacagg agtacctaga ggataggcaa aggtatgaag aagagctagc
2761 agaggttcaa gcaggtggag atggaggaat cggggaaact gaaatggaaa tccgccacag
2821 agtgttctac aaatctaaga gtagaaagca tcaccaggaa gagcgacgcc agctagggct
2881 ggtgacaggt tccgacattc ggaagagaaa accaatcgac tggaccccac ccaagtcagc
2941 atgggcagat gatgagcgtg aggtggatta caatgagaag atcagttttg aggcgccccc
3001 tactttatgg agcagagtga caaagtttgg gtctggatgg ggtttctggg tcagctctac
3061 agtcttcata accacaacgc acgtcatacc aaccagtgcc aaggaattct ttggtgaacc
3121 cctaaccagc atagccatcc acagggctgg tgagttcact ctattcaggt tctcaaagaa
3181 aattaggcct gacctcacag gtatgatcct tgaggagggt tgccccgagg gcacagtgtg
3241 ttcagtgcta ataaaaaggg actctggtga actactgcca ttggctgtaa gaatgggcgc
3301 aatagcatca atgcgtatac agggccgcct tgttcatggg cagtccggca tgctgctcac
3361 cggggcaaat gctaagggca tggatcttgg aaccatccca ggagactgtg gggctcctta
3421 tgtctataag agagccaacg actgggtggt ctgtggtgta cacgctgctg ccaccaaatc
3481 aggcaacacc gttgtgtgcg ccgttcaggc cagtgaagga gaaaccacgc ttgaaggcgg
3541 tgacaaagga cactatgctg gacatgaaat aattaagcat ggttgtggac cagccctgtc
3601 aaccaaaacc aaattctgga aatcatcccc tgaaccacta ccccctgggg tctatgaacc
3661 cgcctacctc gggggccggg accctagggt aactggcggt ccctcactcc aacaggtgtt
3721 gcgggaccaa ttaaagccat ttgctgagcc acgaggacgc atgccagagc caggtctctt
3781 ggaggccgca gttgagactg tgacttcatc attagagcag gttatggaca ctcccgttcc
3841 ttggagttat agtgatgcgt gccagtccct tgataagacc actagttctg gttttcccca
3901 ccacagaagg aagaatgacg actggaatgg caccaccttt atcagggagt taggggagca
3961 ggcagcacac gctaataaca tgtatgaaca ggctaaaagt atgaaaccca tgtacacggc
4021 agcgctcaaa gatgaactag tcaaaccaga gaaggtatac caaaaagtga agaagcgctt
4081 gttatggggg gcagacttgg gcacggtggt tcgggccgcg cgggcttttg gtccattctg
4141 tgatgctata aaatcccaca caatcaaatt gcccattaaa gttggaatga attcaattga
4201 ggatgggcca ctgatctatg cagaacattc aaagtataag taccattttg atgcagatta
4261 cacagcttgg gattcaactc aaaatagaca aatcaagaca gagtcattct caatcatgtg
4321 tcggctaact gcgtcacctg aactagcttc agtggtggct caagatttgc ttgcaccctc
4381 agagatggat gttggcgact atgtcataag agtgaaggaa ggcctcccat ctggttttcc
4441 atgtacatca caggttaata gtataaacca ttggttaata actctgtgtg ccctttctga
4501 agtaactggt ctgtcgccag atgtcatcca gtccatgtca tatttctctt tctatggtga
4561 tgatgaaata gtgtcaactg acatagaatt tgatccagca aaactgacac aagtcctcag
4621 agagtatgga cttaaaccca cccgccccga caaaagcgag ggcccaataa ttgtgaggaa
4681 aagtgtggat ggtttggtct ttttgcgtcg cactatctcc cgcgacgccg caggattcca
4741 ggggcgactg gaccgggcat ccattgaaag acaaatctac tggactagag gacccaacca
4801 ttcagatcct tttgagaccc tggtgccaca ccaacaaagg aaggtccaat taatatcatt
4861 attgggtgag gcctcactgc atggtgaaaa gttttacagg aagatttcaa gtaaagtcat
4921 ccaggaaatt aaaacagggg gccttgaaat gtatgtgcca ggatggcaag ccatgttccg
4981 ttggatgcgg ttccatgacc ttggtttgtg gacaggagat cgcaatctcc tgcccgaatt
5041 tgtaaatgat gatggcgtct aaggacgccc ctcaaagcgc tgatggcgca agcggcgcag
5101 gtcaactggt gccggaggtt aatacagctg accccttacc catggaacct gtggctgggc
5161 caacaacagc cgtagccact gctgggcaag ttaatatgat tgatccctgg attgttaata
5221 attttgtcca gtcaccccaa ggtgagttca caatctctcc taataatacc cccggtgata
5281 ttttgtttga tttacaattg ggtccacacc taaacccttt cttgtcacat ttgtcccaaa
5341 tgtataatgg ctgggttggg aacatgagag tcagaattct ccttgctggg aatgcattct
5401 cagctggaaa gattatagtt tgttgtgtcc cccctggctt cacatcctct tctctcacca
5461 tagctcaggc tacattgttt ccccatgtaa ttgctgatgt gagaaccctt gagccaatag
5521 aaatgcccct cgaggatgta cgtaatgtcc tctatcacac caatgataat caaccaacaa
5581 tgcggctggt gtgtatgcta tacacgccgc tccgcactgg tggggggtct ggtagttctg
5641 attcctttgt agtcgctggc agggttctca cagcccctag cagcgacttc agtttcttgt
5701 tccttgtccc gcctaccata gagcagaaga ctcgggcttt cactgtgcct aatatcccct
5761 tgcaaacctt gtccaattct aggtttcctt ccctcatcca ggggatgatt ctgtcccccg
5821 atgcatctca agtggtccaa ttccaaaatg ggcgttgcct tatagatggt caactcttag
5881 gcactacacc cgctacatca ggacagctgt tcagagtaag aggaaagata aatcagggag
5941 cccgtacact taacctcaca gaggtggatg gtaaaccatt catggcattt gattcccctg
6001 cacctgtggg gttccccgat tttggaaaat gtgattggca catgagaatc agcaaaaccc
6061 caaacaacac aagttcaggt gaccccatgc gcagtgtcag cgtgcaaacc aatgtgcagg
6121 gttttgtgcc acacctggga agtatacaat ttgatgaagt gtttaatcat cccacaggtg
6181 actacattgg caccattgaa tggatttccc agccatctac accccctgga acagatatta
6241 atctgtggga gatccccgat tatgggtcat ccctttccca agcagctaat ctggcccccc
6301 cagtgttccc ccctggattt ggtgaggccc ttgtatactt tgtttctgct ttcccgggcc
6361 ccaataaccg ctcagccccg aatgatgtac cctgtcttct ccctcaagag tacataaccc
6421 actttgtcag tgaacaagcc ccaacgatgg gtgacgcagc tctactgcat tatgtcgacc
6481 ctgataccaa caggaacctt ggggagttca agctataccc tggaggttac ctcacctgtg
6541 taccaaacgg ggtaggtgcc gggccccaac agctccctct caatggtgtt tttctttttg
6601 tttcttgggt gtctcgtttt tatcagctta agcctgtggg aacagccagt acggcaagag
6661 gtaggctcgg agtacgccgt atataatggc ccaagccatc ataggagcaa ttgccgcgtc
6721 agctgcaggc tcagcattgg gtgcgggcat ccaggctggt gccgaggctg cgcttcagag
6781 tcaaagatac caacaagact tagccctgca aaggaatact tttgaacatg ataaggatat
6841 gctttcctac caggtccagg caagtaatgc acttttggca aagaatctca atacccgcta
6901 ttctatgctt gttgcagggg gtctttctag tgctgatgct tctcgggctg ttgctggggc
6961 ccctgtaaca caattgattg attggaacgg cactcgggtt gccgccccca gatcaagtgc
7021 aacaactctg aggtctggtg gtttcatggc agtccccatg cctgttcaac ccaaatctaa
7081 ggccctgcaa tcctctgggt tttctaatcc tgcttatgac acgtccacag tttcttctag
7141 gacttcttct tgggtgcagt cacagaattc cctgcgaagt gtgtcaccct ttcataggca
7201 ggcccttcaa actgtgtggg ttactccacc tgggtctact tcctcttctt ctgtttcctc
7261 aacaccttat ggtgttttta atacggatag gatgccgcta ttcgcaaatt tgcggcgtta
7321 atgttgtaat ataatgcagc agtgggcact atattcaatt tg
//