Typing tool
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Typing tool
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Complete norovirus genomes
| MK956198 | GII.6 | |
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| GII.P7 |
ORF1: 1..2682
ORF2: 2663..4306
ORF3: 4306..5050
LOCUS MK956198 5050 bp RNA linear VRL 12-NOV-2019
DEFINITION Norovirus GII isolate G19_008 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION MK956198
VERSION MK956198.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 5050)
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 5050)
AUTHORS Strubbia,S., Schaeffer,J. and Le Guyader,S.F.
TITLE Direct Submission
JOURNAL Submitted (22-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..5050
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_008"
/isolation_source="sewage"
/db_xref="taxon:122929"
/country="France: Nantes"
/collection_date="22-Mar-2018"
/note="genotype: GII.6-GII.P7"
gene <1..2682
/gene="ORF1"
CDS <1..2682
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QCT04939.1"
/translation="RARYYISCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTET
QETSESEKEVAQGKWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRI
REERNGKYSIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEER
GVLGLVTGSDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGW
GFWVSSNLLITTTHVLPKGIKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLE
EGAPEGTVCSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDL
GTGPGDCGCPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYC
GAPILGPGKAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQL
KPFTEPRGKPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHV
RKNDHWNGESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYRKIKKRL
LWGSDLGTMIRCARAFGGLMDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDA
DYSRWDSTQQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLP
SGVPCTSQWNSIAHWILTLSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMK
LTQKLREYGLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQL
YWTRGPNHENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEF
YVPRQEAMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..207
/gene="ORF1"
/product="p22"
mat_peptide 208..606
/gene="ORF1"
/product="VPg"
mat_peptide 607..1149
/gene="ORF1"
/product="Pro"
mat_peptide 1150..2679
/gene="ORF1"
/product="RdRp"
gene 2663..4306
/gene="ORF2"
CDS 2663..4306
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCT04940.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLIGQTSRSSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
AIDFKGTVFGVASQRDVSGQQVGATRAHEVHINTTDPRYTPKLGSILMHSESDDFVTG
QPVRFTPIGMGDNDWHQWELPDYSGRLTLNMNLAPAVAPAFPGERILFFRSIVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
gene 4306..>5050
/gene="ORF3"
CDS 4306..>5050
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCT04941.1"
/translation="MASAFLAGLAGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHKSPAPPQHAVSSKSRLQNDSASVYSSPSSVSSQS
THSTVLSAGTGSSRSISTSTATPTLSRTSDWVRGQNERLGPFMDGALQTAFVTPPSSK
ASSNGTVSTVPKAVLDSWTPMFNTHRQPLF"
ORIGIN
1 agggccagat actacatcag ctgcttccaa gaccttgtct acaccctaat acaggtcgcc
61 ggagcatcat ttgttgtcaa caggatctct aagagattct gctgggagag atgggtcaaa
121 ccaaccgaga cccaggaaac gagtgaatcc gaaaaggaag tagcccaagg caaatgggag
181 attgagccca aggacacaga accagaaggt aagaagggta agaacaagaa aggaagaggc
241 aagaaacaca cagctttctc cagcaaaggc cttagtgatg aggagtatga cgagttcaag
301 agaattagag aagaaaggaa cggaaaatac tccattgagg aatacctgca agaccgggat
361 cgctactatg aggaagtggc agttgcccgg gcgacagagg aggacttctg tgaagaggag
421 gaggccaaga taagacaaag aatctttcgt cccacaaaga aacagaggaa ggaagaaagg
481 ggggtgcttg gtttggtcac tggctcagac atcaggaaga ggagaccaga cgattttcaa
541 ccgaagggca acctgtgggc agacgacacc aggagtgtgg attacaacga gagacttgat
601 ttcgaagctc ccccgagtgt ctggtctaga atagtcccat tgggtactgg ctggggcttc
661 tgggtctcat ccaacctcct gatcacaaca acacacgtcc tgcctaaggg gattaaggaa
721 ctttttggag ttgaagtcaa acagatccaa attcataagt ctggagagtt ctgcaggttc
781 agattcccaa gaccaatcag accagatgtc acagggctcg tgttggagga gggtgctcca
841 gaaggcactg tctgctccat actcgtgaag agaccaacag gtgagatgat ccctctggca
901 gtgaggatgg gcacgcatgc atccatgaaa atacagggta gaaccgtcgg tggtcagatg
961 ggaatgcttc tcacaggggc aaatgcgaag aacatggatc ttggcaccgg ccctggtgac
1021 tgtggttgtc cttacatcta caaacgtggc aatgatatag ttgtcgcggg tgtccacacc
1081 gcagcagccc ggggaggcaa cactgtcata tgtgccactc aagggcaaga tggggaggca
1141 gtccttgagg gaaatgagaa ccttggaact tactgcggtg ccccaatttt gggtccaggc
1201 aaggcgccca aacttagcac aaagaccaag ttctggcgtt cgtcaccaga cgctctgccg
1261 ccaggcactt atgagcctgc ctacttggga ggcaaggacc ctagagtaga aaagggacca
1321 tccctgcagc aagtcatgag agaccaacta aaacctttca cagaacccag gggcaagcca
1381 cctagacccg cagtcttaga agaagccaaa aagacagtga tgaatgttct agaacaaacc
1441 attgatcctg ctaagccatg gacctactcc caagcatgcg cttcactgga caagaccacc
1501 tccagtggta gccctcatca tgtcaggaaa aatgaccatt ggaatgggga atcctttact
1561 ggcccccttg cagaccaagc atccaaagcc aacctcatgt acgagcaggc caaacatgtg
1621 cagcccgtgt acacggccgc actcaaagac gagctagtca agactgacaa gatctacagg
1681 aagataaaga aaaggctctt atgggggtcg gatcttggta caatgatcag gtgtgccagg
1741 gcctttggtg gtctcatgga tagcatgaag gcaagttgca taaccctccc atgtagggtg
1801 ggaatgaaca tgaatgaaga tggtcccatc atatttgaca aacactctaa gtataggtac
1861 cattatgatg ctgactattc caggtgggac tcaacccagc aaaggagcat tctctcggcc
1921 gctatggaag tgatggtgcg gttctctgcc gaaccagagc tggcacaagt ggttgcagag
1981 gacctcctgg cacccagcca actagatgtt ggcgactttg tcatctcagt tcaggagggt
2041 ctgccgtcag gggtaccatg tacatcacaa tggaattcaa tagcacattg gatcctaact
2101 ttgagtgcaa tggcagaagt gtcgggtctc tcaccagatg ttattcaagc ccactcctgt
2161 ttctcatttt acggtgatga tgagatcgtc agcactgaca tcaaccttga tcccatgaag
2221 ttgacacaga aactcagaga gtatggccta gtccctactc gacctgacaa aactgagggt
2281 ccccttgtaa taactgaaga tctcaccggc ctaacgttcc tgcgtaggtc aattgcacgg
2341 gatccagctg ggtggtttgg aaaattagac caagactcaa tcctcaggca attgtactgg
2401 acaaggggcc ccaatcatga gaacccatat gagagcatgg tcccccattc ccagcgggcc
2461 acacagctta tggcccttct cggtgaggct tcactgcatg gcccccagtt ttacaagaag
2521 gtcagcaaga tggtcattaa cgaaatcaaa agtggtggtc tggaattcta tgtgcccaga
2581 caagaggcca tgttcagatg gatgagattc tctgacctca gcacatggga gggcgatcgc
2641 aatcttgctc ccgagggtgt gaatgaagat ggcgtcgaat gacgctgctc catcgaatga
2701 tggtgctgcc aacctcgtac cagaggccaa caatgaggtt atggcacttg agccggtggt
2761 gggagcttca attgcagctc ctgtcgtcgg ccaacaaaac ataattgacc cctggattag
2821 agaaaatttt gttcaagcac cacagggtga gttcactgtc tcgccgagga actcgcctgg
2881 tgagatgcta ttaaatcttg aattaggccc agaactcaac ccttacctaa gtcacctgtc
2941 ccgtatgtat aatgggtatg ctggtggcat gcaggttcag gtggtcctag ctgggaatgc
3001 gttcacagct gggaaaatca tctttgccgc tgtgccacca catttccccg tggaaaacat
3061 cagtgcagct caaataacta tgtgccccca tgtgattgtt gatgtgagac aacttgagcc
3121 agtactccta ccccttcctg acataaggaa taggttcttt cattacaatc aggagaacac
3181 tccccggatg agactagtgg ctatgcttta cacccccctg agggccaact ctggtgaaga
3241 tgtgtttact gtctcttgta gggtcttaac ccgtcctgcc cctgattttg aatttacttt
3301 cttggtacca ccaactgttg aatcaaagac taagcctttt acactaccca tattaactct
3361 tggtgagcta tctaattcca gattcccagc cccaatagat atgttgtaca ctgatccaaa
3421 tgagggaatt gtagtccaac cacaaaatgg taggtgcact cttgatggca ctctgcaagg
3481 caccacacaa ctggtcccca cccaaatttg tgctttcagg ggcacactaa ttggccaaac
3541 atcaagatct tcagactcaa ccgactcagc ccctcggagg agggatcacc cactccatgt
3601 gcaattaaag aaccttgatg gcacgcagta tgaccctact gatgaagtgc cagcagtcct
3661 cggtgccatt gatttcaagg ggactgtctt tggggtggcc agtcagaggg acgtgtcagg
3721 acaacaggtg ggagcaactc gagcccatga agtgcacatc aacacaaccg atcctaggta
3781 tacaccaaaa ctagggtcca ttctcatgca ctcagagtcg gacgacttcg tgactggaca
3841 gccggtccgc ttcacaccca taggaatggg cgacaacgac tggcatcagt gggagctgcc
3901 cgactattct ggacgcctaa ccctaaacat gaaccttgcc ccagcagttg ctcctgcatt
3961 tccgggtgag aggattcttt tcttcaggtc aattgtcccg tctgctggtg gctacggctc
4021 tgggcaaata gattgcctca taccacagga gtgggttcag catttctacc aagaagctgc
4081 accatcccaa tctgccgtgg cactcatcag gtatgtcaac cctgacacag gcagaaacat
4141 ctttgaggct aaattgcaca gggaaggctt catcaccgtg gctaattctg gcaacaaccc
4201 cattgttgtc ccccctaatg ggtattttag gtttgaggct tgggtgaatc aattttacac
4261 tttgaccccc atgggaactg gtcaggggcg taggaggaat caataatggc tagtgctttt
4321 cttgcaggtc ttgctggtga cgtcataaca aatggcgttg gatctctaat aaatgctggt
4381 gctaatgcag ttaatcagaa agttgaatat gattttaata aacagcttca aatggcatca
4441 tttaaacatg ataaagagat gttgcaatca caagtgttgg caaccaagca gttgcagcag
4501 gagatgatga acattaggca gggggtgttg accgctggcg gcttctcccc cgcggatgct
4561 gctagagggg ctgtcaatgc cccaatgaca aagattctgg actggaatgg caccaggtat
4621 tgggcaccaa acagcatgaa aaccacaagt tattcaggac agttttctag cagccctgtt
4681 cataagtctc ctgctcctcc ccagcatgct gtttcatcaa agagtagatt gcaaaatgat
4741 tctgctagtg tatatagttc tccttcttct gtttcttcac aatcaactca ttcaacagtg
4801 ctgtcagcag gaactgggtc ctccaggtcc atctccacat ctacagctac ccccaccttg
4861 tctaggacca gcgactgggt taggggacag aacgagaggc ttggcccgtt catggatggt
4921 gctctccaaa ctgcctttgt cacacctcca tcgagcaaag cttcttcaaa tggtacggtc
4981 tcaaccgttc ccaaagctgt tttggactcc tggactccta tgtttaacac ccataggcag
5041 cctctcttcg
//