Typing tool
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Typing tool
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Complete norovirus genomes
| MK789654 | GI.3 | |
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| GI.P3 |
ORF1: 1..5356
ORF2: 5340..6977
ORF3: 6977..7624
LOCUS MK789654 7648 bp RNA linear VRL 01-NOV-2019
DEFINITION Norovirus GI isolate G19_013 nonstructural polyprotein (ORF1) gene,
partial cds; and VP1 (ORF2) and VP2 (ORF3) genes, complete cds.
ACCESSION MK789654
VERSION MK789654.1
KEYWORDS .
SOURCE Norovirus GI
ORGANISM Norovirus GI
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7648)
AUTHORS Strubbia,S., Phan,M.V., Schaeffer,J., Koopmans,M., Cotten,M. and Le
Guyader,S.F.
TITLE Optimisation of agnostic metagenomic approaches to characterise
human enteric viruses in sewage
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7648)
AUTHORS Le Guyader,S. and Strubbia,S.
TITLE Direct Submission
JOURNAL Submitted (02-APR-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..7648
/organism="Norovirus GI"
/mol_type="genomic RNA"
/isolate="G19_013"
/isolation_source="sewage"
/db_xref="taxon:122928"
/country="France: Nantes"
/collection_date="08-Jan-2014"
/note="genotype: GI.3-GI.P3"
gene <1..5356
/gene="ORF1"
CDS <1..5356
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QCA41813.1"
/translation="NNNANTNNDNIGSRLMARIRGRMGPQRGETTTKITDANMALNLL
RRSQTPSPSRQESPPKSQRDRPPRTASEVKKVLGWDVEPEHQESTAKAWCDLTQEEKE
EIMRNNEKLFDAGGITPSTLPSTFERADPVDSPIEQQPVTWSASGGVDIGVNDLTTVS
GPFWNMCPLPPLDARNNGPAKEPLIGDMIEFYEGHIFHYAIYIGQGKTIGVHSPQAAF
SIPRITIHPLVAWWRVCYVPTNQQRLTYDQLKELENEPWPYASITNNCYEFCCRVMAL
DDTWLERRLVSTGKFNHPTQDWSQDTPDFHQDSKLEMVRDAVLSAINGLVSQPFKNIL
SKIKPLNVLNLLSNCDWTFMGVVELIVLLAELFDVFWTPPDISSFIASLLPEFHLQGP
EDLARDLVPLILGGIGLAIGFTRDKVTKVMKSAVDGLRSATQLGQYGLEIFSIIKKYF
FGGDQTEKTLRGIEDAVIDMEVLSSTNVTQLVKDKKLARTYMNVLDNEEEKARKLSVR
SADPHIVTSVNNLISRISMARSALAKAQAEMTSRPRPVVIMMCGPPGIGKTKAAEHLA
GRLANEIRPGGKVGLVPRESIDHWDGYHGEDVLLWDDYGMSKITEDCNKLQAIADTAP
LSLNCDRIENKGMQFSSDAIIITTNAPGPAPVDFVNLGPVCRRVDFLVYCSAPEIEQM
RRTHPGDANAIKDLYKRDYSHLKMELAPQGGFDSQGNTPFGKGIMKPTTLNRLLIQAT
ALAMERQDEFQLQGAVYNFDEDRVSAFTNLARANGLGLLSMATLGKRLRNVKSMEGLR
NALVGYKIGECDIIWNTRVYSIKSDGSIVTIKEKQTPTSPQYQAISTATLALSRLRAA
RALAYASCLQSAVLSILQVAGSALVVSRAVKRMFGTRTEQPMLEGKHKEHNCRVHRAE
AAGHGPIGHDGVIERYGLCESEQEEEGEQTVELPTANKEGKNKGKTKKGRGRKSNFNA
FSRRGLSDEEYEEYKKIREEKSGNYSIQEYLEDRQRYEEELAEVQAGGDGGIGETEAE
IRHRVFYKSKSGMRKQRQEERRQLGLVSGSEIRKRKPIDWTPPKNDWSEDTRTVNYDE
HISFEAPPSIWSRVVKFGSGWGFWVSSTVFITTTHVIPPGAKEVFGEDLSNVAIHRVG
EFTQFRFSKKMRPDLTGMVLEEGCPEGTVCTIMIKRDSGELLPLAVRMGAVASMKIQG
KLMHGQSGMLLTGANAKGMDLGTIPGDCGAPYVHKRGNDWVVCGVHAAATKSGNTVVC
AIQGGDGEATLEGGGQNKGHYAGHPILRYGNGPSLSTKTKFWKSTPQPLPPGTYEPAY
LGGRDPRVEGGPSLQQVLRDQLKPFAEPRGRLPEAGLLEAAVETVTNAIEQVMDTPVA
WSYSDACMSLDKTTSSGHPHHKKKNDDWNGNSFVRELGDQAAHANSMYELGKSMKPVY
TAALKDELVKPDKVYTKIKKRLLWGADLGTVIRAARAFGPFCEAIKPHVIKLPIKVGM
NAIEDGPLIYAEHSKYKFHYDADYTAWDSTQNREIMMESFNIMCKLTANPSLAAVVAQ
DLLSPSEMDVGDYVISVKDGLPSGFPCTSQVNSINHWILTLCALSEVTGLSPDVIQSQ
SYFSFYGDDEIVSTDIEFDPIRLTQILKEYGLKPTRPDKTDGPIIIRQQVDGLVFLRR
TISKDAIGYQGRLDRNSIERQLWWTRGPNHEDPFETLVPHSQRKVQLISLLGEAALHG
EKFYRKIAGRVIQEVKEGGLEIYIPGWQAMFRWMRFHDLSLWTGDRDLLPDYVNDDGV
"
mat_peptide <1..1171
/gene="ORF1"
/product="p48"
mat_peptide 1172..2260
/gene="ORF1"
/product="NTPase"
mat_peptide 2261..2860
/gene="ORF1"
/product="p22"
mat_peptide 2861..3280
/gene="ORF1"
/product="VPg"
mat_peptide 3281..3823
/gene="ORF1"
/product="Pro"
mat_peptide 3824..5353
/gene="ORF1"
/product="RdRp"
gene 5340..6977
/gene="ORF2"
CDS 5340..6977
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCA41814.1"
/translation="MMMASKDAPTNMDGTSGAGQLVPEANTAEPISMEPVAGAATAAA
TAGQVNMIDPWIMNNYVQAPQGEFTISPNNTPGDVLFDLQLGPHLNPFLSHLAQMYNG
WVGNMKVKVLLAGNAFTAGKIIISCIPPGFAAQNISIAQATMFPHVIADVRVLEPIEV
PLEDVRNVLFHNNDNTPTMRLVCMLYTPLRASGSSSGTDPFVIAGRVLTCPSPDFSFL
FLVPPNVEQKTKPFSVPNLPLNTLSNSRVPSLIKSMMVSRDHGQMVQFQNGRVTLDGQ
LQGTTPTSASQLCKIRGSVFHANGGNGYNLTELDGSPYHAFESPAPIGFPDLGECDWH
MEASPTTQFNTGDVIRQINVKQESAFAPHLGTVQVDGLSDVSVNTNMIAKLGWVSPVS
DGHKGDVDPWVIPRYGSTLTEAAQLAPPIYPPGFGEAIVFFMSDFPIAHGTNGLSVPC
TIPQEFVTHFVNEQAPTRGEAALLHYLDPDTNRNLGEFKLYPDGFMTCVPNSSGTGPQ
TLPINGVFVFVSWVSRFYQLKPVGTAGPARRLGIRRS"
gene 6977..7624
/gene="ORF3"
CDS 6977..7624
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCA41815.1"
/translation="MAQAILGAIAATAAGSAVGAGIQAGTEAALQHQRFQQDLTLQKN
SFIHDKEMMGLQVEASTALLQNSLGTRYNMLTKAGMTSADAARMVVGAPATRVVDWNG
TRIAAPMSTATTLRSGGFMTVPTVYRGSKNKQSIGGGFSNVNYDPSVSSSRTSQWVSS
QNSMRSTLEPFHPGALRTTWVTPPGSTSTSTISTVSTVPKFFNTERLPLFANRGK"
ORIGIN
1 caataacaat gctaacacca acaatgataa cattggatcc cgcctcatgg cgaggatccg
61 tgggcgcatg ggcccacaac gtggtgaaac aaccacaaaa ataacagacg ccaatatggc
121 gcttaatctg ctacgccggt cacaaacacc ttccccatcc cggcaagaga gccctcctaa
181 gagccagaga gaccgccccc ctcggactgc ttctgaggtg aagaaagtgt tggggtggga
241 tgttgaacca gaacaccagg aaagcacggc caaggcatgg tgcgacctca cgcaagaaga
301 gaaggaggaa ataatgcgca acaatgaaaa gctcttcgat gctgggggaa tcaccccatc
361 aactttgcct agcacgtttg aaagggccga cccagttgat agccccattg aacagcaacc
421 tgtgacatgg tctgctagtg gtggggtcga tattggtgtt aatgatttga ccaccgtcag
481 tggcccattt tggaatatgt gccccctccc gccactggat gctcggaata atggccccgc
541 taaggagccc ctcataggag atatgataga gttctatgag ggtcatatat tccattatgc
601 catctatatt ggacaaggta agaccattgg ggtccactca ccgcaagcag ctttctccat
661 accaaggata accatccatc ctctggtagc ctggtggcgc gtgtgctacg ttccaactaa
721 ccagcagcgc ctcacttatg accagctcaa agagctggag aatgagccat ggccctacgc
781 ttccattaca aacaattgct atgagttttg ctgcagagtg atggcacttg acgacacatg
841 gcttgagagg aggttagtca gcactggaaa attcaatcac cccacacaag attggtcaca
901 ggataccccg gattttcacc aggactcgaa acttgagatg gtaagagatg ccgtgctatc
961 agctattaat ggccttgtgt cacagccctt taaaaacatt ttgtcaaaga tcaaaccatt
1021 aaacgtcctc aatctcttgt caaattgtga ttggaccttc atgggggttg tggaactgat
1081 tgtgctccta gcggagttgt ttgatgtgtt ctggacccca ccagacatct caagtttcat
1141 tgcctcacta ctacctgaat ttcacctgca gggcccagaa gacctagcta gggacttggt
1201 ccctctcatc ctaggtggca taggcctggc tattggcttt acaagagaca aagtgacgaa
1261 agtgatgaag agtgccgtcg atgggttgag atcggcgaca cagctcgggc agtacggact
1321 ggaaatattc tcaatcatca agaaatattt ctttggtggg gatcaaacgg aaaagacctt
1381 gcggggtatt gaggatgcag tgatagacat ggaggtgtta tctagcacca atgtgacgca
1441 attggttaaa gataagaaat tggccagaac ctacatgaat gtgctagaca atgaagagga
1501 aaaagcaagg aaactctcag tccgtagtgc tgatccgcac atagtgacct cagtcaacaa
1561 tctgatatca cgtatatcta tggcaagatc agccttggcc aaagcccagg ctgagatgac
1621 atctcgccca cgccctgtgg tcataatgat gtgtggcccc cccggcatcg gaaaaaccaa
1681 ggccgccgag cacctggctg gccgattggc aaacgagatt agaccaggag gtaaggttgg
1741 acttgtgccc cgggaatcca tagatcactg ggacggatac catggcgagg atgtcctact
1801 atgggatgac tatggcatgt caaagataac agaggactgt aataagctac aagccatagc
1861 tgacactgca cccctatcac ttaattgtga caggatagag aacaaaggca tgcaattctc
1921 ctcagatgca ataatcataa ccaccaatgc ccctggcccg gccccggtgg actttgtcaa
1981 cctaggccct gtgtgcaggc gagtggactt tttagtttac tgttctgccc ctgaaattga
2041 gcaaatgaga aggacccatc ctggtgatgc caatgccatc aaagacctat acaaaaggga
2101 ctactcacac ttaaaaatgg aattggcccc acaaggtggt tttgatagtc agggtaacac
2161 accatttggg aagggcatca tgaaacccac gaccctcaat aggctactca ttcaggcaac
2221 agcattggct atggagcggc aagacgaatt ccagctccaa ggggctgtct acaactttga
2281 tgaagacagg gtgtccgcct tcacaaacct ggcccgagct aacggcttgg ggcttttaag
2341 catggcaaca ttgggtaaaa ggctcagaaa tgtcaaatct atggagggcc tgcgtaacgc
2401 attggtgggc tacaaaatag gggagtgtga tataatctgg aacactagag tgtattcaat
2461 taaaagtgat ggtagtattg tcacaatcaa ggaaaaacaa accccaactt caccccaata
2521 ccaagccatt agcacagcca ctcttgcact ctctaggttg cgggccgcta gagctctcgc
2581 gtacgcctcc tgcctgcaga gtgcagtgct gtcaatactt caagtagctg gctctgccct
2641 agtggtgagc agagccgtta agcgcatgtt tggcacgcgc actgaacaac ctatgttgga
2701 aggcaagcac aaagaacaca actgtagagt gcaccgcgca gaggcagctg gccatggtcc
2761 tattgggcac gatggagtca tcgaacgcta tggcctctgt gagagtgagc aagaagaaga
2821 aggcgagcaa acagttgagc tacccactgc caataaagaa ggcaaaaaca agggcaagac
2881 caaaaagggc cgtggacgaa aatccaattt taatgctttc tcaagacgag gcctcagtga
2941 tgaagagtat gaagaataca agaagatcag agaagaaaag agtggcaatt acagcatcca
3001 ggagtacctc gaggaccgcc aacgatatga ggaagaactt gctgaagtgc aggctggtgg
3061 ggatggtgga attggtgaga ctgaagcaga gattcgccat cgggttttct ataaatcaaa
3121 atccggcatg agaaagcaac gccaagaaga acggcgtcag ttgggtctcg ttagcggttc
3181 tgagatccgc aaacgcaagc ccatagactg gaccccccct aagaatgatt ggtcagaaga
3241 caccaggact gtcaactatg atgaacacat tagctttgaa gcccctccct caatttggag
3301 tagggtggtg aagtttggca gtggttgggg tttttgggtg agctcaacag tgttcataac
3361 cacgacccat gtcataccac ctggggccaa agaagtcttt ggtgaagacc tcagtaatgt
3421 ggccatccat agagttggtg agttcaccca gttccgtttc tccaaaaaga tgagacctga
3481 cctcaccggt atggttttag aagaaggttg cccagaggga acagtgtgca ccataatgat
3541 caagagagat tctggtgagt tgctgccgct cgccgttcgg atgggggcag tggcatcaat
3601 gaagatccaa ggcaaactta tgcatgggca atcaggaatg ttactcaccg gtgctaatgc
3661 caaaggcatg gaccttggga ctatacccgg tgattgtggg gcaccctatg tccacaagag
3721 gggaaatgac tgggtggtct gtggagtaca tgcagccgcc acaaaatcag gcaacactgt
3781 ggtgtgcgcc atacaaggtg gcgatggtga agccactcta gaaggcggcg gtcaaaacaa
3841 gggccactat gcagggcatc cgatactaag gtatgggaat ggcccttcat tatcaaccaa
3901 aacaaaattt tggaaatcaa ccccccagcc tttgccccct ggtacatatg agccagctta
3961 ccttggaggc agagacccca gagttgaggg gggcccatcc ttacagcagg tgttaaggga
4021 ccagttaaaa ccatttgccg agccccgtgg cagattaccc gaagcgggtt tgttggaagc
4081 tgcagttgaa acggtcacca atgctattga acaggtcatg gacacaccgg tggcatggag
4141 ctatagtgat gcttgcatgt cactagataa gacaaccagt tccggccatc cccatcacaa
4201 gaagaaaaat gatgattgga atgggaattc atttgtgaga gaattgggtg accaggcggc
4261 acacgctaac agcatgtatg agcttggtaa gtccatgaaa cctgtgtaca cagcagccct
4321 aaaggatgag ctagtcaaac cagataaggt gtacacaaag atcaaaaaga gactgctttg
4381 gggcgcggac ctcggtaccg tcattcgcgc tgccagagca tttggaccat tttgtgaggc
4441 cataaaaccc catgtaatta agttgcctat caaggtgggt atgaatgcca tagaggatgg
4501 ccccttgatt tatgctgagc actccaaata taaatttcat tatgatgctg actatacagc
4561 ttgggactca acacaaaaca gagaaatcat gatggaatct ttcaacatta tgtgcaagct
4621 tacagccaat ccctccttgg ccgcagtggt ggcacaggat ctactctccc catctgaaat
4681 ggatgttggt gactatgtga tcagtgtcaa agatggttta ccatctggct ttccatgcac
4741 ttcacaggtg aacagtatca accactggat actaaccctg tgtgcactgt cagaagtcac
4801 tggcttgtcc ccagatgtga tacagtcaca atcctacttc tcattttatg gtgatgatga
4861 aatagtctca acagatatag aatttgaccc aattagactg acacaaatat tgaaggaata
4921 tggtttgaag cctacaagac ctgacaaaac tgatggccca attattatta gacaacaggt
4981 tgatggcctg gtcttcctcc ggcgcactat ttctaaggat gccattggat accagggacg
5041 actcgaccgt aactctattg aaaggcagct ttggtggact cgtggaccaa accatgagga
5101 cccatttgag acactggtcc cacattcaca gaggaaggtc caattaatat ccttgctagg
5161 tgaagcagca ctccacggtg aaaagttcta caggaagata gctggcaggg tcatccaaga
5221 agtcaaagag ggagggcttg aaatctacat tcctggctgg caggccatgt tccgctggat
5281 gcgattccat gatctaagtt tgtggacagg agaccgcgat ctcctgcccg attatgtaaa
5341 tgatgatggc gtctaaggac gccccaacaa acatggatgg caccagtggt gccggccagc
5401 tggtaccaga ggcaaataca gctgagccta tatcaatgga gcccgtggct ggggcagcaa
5461 cagctgccgc aactgctggc caagttaata tgattgaccc ctggataatg aacaattatg
5521 tacaagcccc ccaaggtgaa tttaccatat cgcctaataa cacaccaggt gatgttttgt
5581 ttgatttaca gttaggcccc caccttaacc ctttcttatc tcatttggcc caaatgtata
5641 atggctgggt tggcaatatg aaagtgaagg ttctattggc tggtaatgct ttcacggctg
5701 gtaaaataat tattagttgc ataccccctg gctttgccgc acagaatatt tctattgccc
5761 aggccaccat gttcccccat gtcatagctg atgttagggt tttggaaccc attgaggtgc
5821 cattggaaga tgtgaggaat gtgctcttcc acaacaatga caacacgcca actatgcggt
5881 tggtgtgcat gctatatacc cccttgcggg ccagtggtag ctcgtctgga actgacccct
5941 ttgtgattgc tgggcgtgtt ttgacatgcc caagtcctga ttttagcttt ttgtttttgg
6001 tcccccccaa tgtagagcaa aagactaaac ctttcagtgt cccaaacctt ccattgaata
6061 ccctttcaaa ttcgagagtc ccttctctaa tcaaatcaat gatggtgtcc agggaccatg
6121 ggcagatggt tcagtttcaa aatggtaggg tcaccctaga tgggcagctg caaggcacca
6181 cacccacatc agctagtcag ctgtgcaaaa tcaggggcag tgtcttccat gccaatggtg
6241 ggaatgggta caacttaaca gaactggatg ggagcccata ccacgcattt gagagccccg
6301 caccaatagg gtttccggat ctaggtgaat gtgattggca catggaggct tctcctacca
6361 cccaatttaa tactggagat gttataagac aaattaatgt taaacaagag tcagcatttg
6421 ccccccacct tggcaccgta caggtagacg gcctgagtga tgtgagtgtc aacaccaaca
6481 tgatagctaa attaggatgg gtgtctcccg tcagtgatgg acacaaaggg gatgtcgacc
6541 cgtgggtcat tccacgctat ggttcaactc tgactgaggc cgcccaatta gcccccccaa
6601 tatatccccc aggctttggt gaggccattg tgtttttcat gtcagatttt cccattgccc
6661 atggcaccaa tggcttgagt gtgccttgca ctatacccca agaatttgtc acccattttg
6721 tcaatgaaca ggcccctact agaggggaag cagccttgct acactatctg gaccctgata
6781 ctaatagaaa tcttggtgag tttaaattat atcctgatgg cttcatgaca tgtgtgccta
6841 actccagtgg cactggtcca caaactcttc caatcaatgg tgtctttgtc tttgtgtcct
6901 gggtttctag attttatcaa ttaaagcctg tgggaacagc cggcccggct cgtaggcttg
6961 ggattaggag atcataatgg ctcaagccat acttggagcc atagcagcaa cagcagccgg
7021 tagtgctgtt ggtgctggta tacaagctgg aaccgaagct gccctacaac atcaaagatt
7081 tcagcaagat ttgaccttac aaaagaattc ctttattcat gataaagaga tgatgggcct
7141 acaggtagag gcttcaactg cactcctcca aaacagcttg ggaacgaggt acaatatgtt
7201 gaccaaagca gggatgacat ccgcagacgc ggcacgtatg gtagtggggg cacccgcgac
7261 tcgtgtcgtt gactggaacg ggactaggat cgccgcaccc atgtcaactg cgacgacact
7321 taggtctggt ggtttcatga ccgtaccaac tgtttatagg ggtagtaaaa ataaacaatc
7381 aattggtggt ggtttttcta atgtaaatta tgatccctca gtctcctctt cccgcacttc
7441 tcaatgggtc tcttctcaaa attcaatgcg ttccactttg gaaccatttc atccaggtgc
7501 tctgagaacc acatgggtca ccccacctgg gtcaacttct acttctacaa tttctacagt
7561 ttctactgtg ccaaaattct ttaatacaga aaggttaccc ttattcgcaa acaggggtaa
7621 gtgattttgt aatatgaatt agtgggca
//