Typing tool
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Typing tool
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Complete norovirus genomes
| MN416946 | GII.6 | |
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| GII.P7 |
ORF1: 1..4938
ORF2: 4919..6562
ORF3: 6562..7262
LOCUS MN416946 7262 bp RNA linear VRL 31-DEC-2019
DEFINITION Norovirus GII isolate G19_045 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION MN416946
VERSION MN416946.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7262)
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JOURNAL Unpublished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 7262)
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..7262
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_045"
/isolation_source="digestive tissue"
/host="shellfish"
/db_xref="taxon:122929"
/country="France"
/collection_date="11-Nov-2018"
/note="genotype: GIIP7, GII.6"
gene <1..4938
/gene="ORF1"
CDS <1..4938
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="QEM24861.1"
/translation="TKAPSSDQHCPTVKIGTKTLTVPPEPPNGEDTVQFDAKSETVRG
LPDLTTVQNEHENTPYTVPPLSEREHRPATEPLPGTILEMWDGEFYHYSVYVSGGKAL
GVHKPPAAISLATIELTPISLYWRPVYTPNYLVCPDTLKGLAGEKFPYTAFSNNCYNF
CCWVLELNDTWLSRRSISRTTGFFKPYQSWNRKPLPTVDDGKIKKVANAILCALGSLF
SKPIKDLLGKLKPLNLLHLLASCDWTFAGIVETVILMAELFNIFWTPPDVSSFIASLI
GDFELQGPEDLAVELVPVVMGGIGMVLGFTAEKIGRMLSSAASTLRACKDLGNYALDI
LKLVMKWFFPKKEEKAEMETLRAIEDAVLDMEAIGNNHLTTLLKDKDSLTAFMKTLDL
EEEKARKLSTKSSSPDIVGTINAILARIAAARSLLHKAKEEMFSRIRPVVVMISGRPG
IGKTHMARHLAKSIANTMSGDQRVGLVPRNGVDHWDAYRGERVVLWDDYGMGNPVKDA
LTLQELADTCPVTLNCDRIENKGKMFDSDVIIITTNLVNPAPLDYVNFEACSRRVDFL
VYAESPEIEKVKRDFPGQPDMWKDHFKPDFSHIKLTLAPQGGFDKNGNTPHGKGTMRS
LTQGSLTARVAGLVHERRDEFQLQGNDLQTYNFDTNRVSAFRKLAADNKYGIMETMRV
GTALKSVKTLEDLKVALRDVKFNECEIIYRNSKYRVSSNGKGSVSVDKVEDQTSQTAN
EVGAALLRLRQARARYYVSCFQDLVYTLIQVAGASFVVNRISKRFCWERWVKPTETQE
TSESEKEVAQGKWEIEPKDTEPEGKKGKNKKGRGKKHTAFSSKGLSDEEYDEFKRIRE
ERNGKYSIEEYLQDRDRYYEEVAVARATEEDFCEEEEAKIRQRIFRPTKKQRKEERGV
LGLVTGSDIRKRRPDDFQPKGNLWADDTRSVDYNERLDFEAPPSVWSRIVPLGTGWGF
WVSSNLLITTTHVLPKGIKELFGVEVKQIQIHKSGEFCRFRFPRPIRPDVTGLVLEEG
APEGTVCSILVKRPTGEMIPLAVRMGTHASMKIQGRTVGGQMGMLLTGANAKNMDLGT
GPGDCGCPYIYKRGNDIVVAGVHTAAARGGNTVICATQGQDGEAVLEGNENLGTYCGA
PILGPGKAPKLSTKTKFWRSSPDALPPGTYEPAYLGGKDPRVEKGPSLQQVMRDQLKP
FTEPRGKPPRPAVLEEAKKTVMNVLEQTIDPAKPWTYSQACASLDKTTSSGSPHHVRK
NDHWNGESFTGPLADQASKANLMYEQAKHVQPVYTAALKDELVKTDKIYRKIKKRLLW
GSDLGTMIRCARAFGGLMDSMKASCITLPCRVGMNMNEDGPIIFDKHSKYRYHYDADY
SRWDSTQQRSILSAAMEVMVRFSAEPELAQVVAEDLLAPSQLDVGDFVISVQEGLPSG
VPCTSQWNSIAHWILTLSAMAEVSGLSPDVIQAHSCFSFYGDDEIVSTDINLDPMKLT
QKLREYGLVPTRPDKTEGPLVITEDLTGLTFLRRSIARDPAGWFGKLDQDSILRQLYW
TRGPNHENPYESMVPHSQRATQLMALLGEASLHGPQFYKKVSKMVINEIKSGGLEFYV
PRQEAMFRWMRFSDLSTWEGDRNLAPEGVNEDGVE"
mat_peptide <1..846
/gene="ORF1"
/product="p48"
mat_peptide 847..1944
/gene="ORF1"
/product="NTPase"
mat_peptide 1945..2463
/gene="ORF1"
/product="p22"
mat_peptide 2464..2862
/gene="ORF1"
/product="VPg"
mat_peptide 2863..3405
/gene="ORF1"
/product="Pro"
mat_peptide 3406..4935
/gene="ORF1"
/product="RdRp"
gene 4919..6562
/gene="ORF2"
CDS 4919..6562
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QEM24859.1"
/translation="MKMASNDAAPSNDGAANLVPEANNEVMALEPVVGASIAAPVVGQ
QNIIDPWIRENFVQAPQGEFTVSPRNSPGEMLLNLELGPELNPYLSHLSRMYNGYAGG
MQVQVVLAGNAFTAGKIIFAAVPPHFPVENISAAQITMCPHVIVDVRQLEPVLLPLPD
IRNRFFHYNQENTPRMRLVAMLYTPLRANSGEDVFTVSCRVLTRPAPDFEFTFLVPPT
VESKTKPFTLPILTLGELSNSRFPAPIDMLYTDPNEGIVVQPQNGRCTLDGTLQGTTQ
LVPTQICAFRGTLIGQTSRSSDSTDSAPRRRDHPLHVQLKNLDGTQYDPTDEVPAVLG
AIDFKGTVFGVASQRDVSGQQVGATRAHEVHINTTDPRYTPKLGSILMHSESDDFVTG
QPVRFTPIGMGDNDWHQWELPDYSGHLTLNMNLAPAVAPAFPGERILFFRSIVPSAGG
YGSGQIDCLIPQEWVQHFYQEAAPSQSAVALIRYVNPDTGRNIFEAKLHREGFITVAN
SGNNPIVVPPNGYFRFEAWVNQFYTLTPMGTGQGRRRNQ"
gene 6562..>7262
/gene="ORF3"
CDS 6562..>7262
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QEM24860.1"
/translation="MASAFLAGLAGDVITNGVGSLINAGANAVNQKVEYDFNKQLQMA
SFKHDKEMLQSQVLATKQLQQEMMNIRQGVLTAGGFSPADAARGAVNAPMTKILDWNG
TRYWAPNSMKTTSYSGQFSSSPVHKSPAPPQHVVSSKSRLQNDSASVYSSPSSVSSQS
THSTVLSAGTGSSRSISTPTATPTLSRTSDWVRGQNERLGPFMDGALQTAFVTPPSSK
ASSNGTVSTVPKAVL"
ORIGIN
1 actaaagcac ccagtagtga tcagcactgc cccacagtta agatcgggac caagacatta
61 acagttcccc ctgagccccc aaatggtgaa gacaccgtac agtttgacgc gaagtcggaa
121 actgtgcgtg ggctaccaga cttgacaacg gtgcaaaatg aacacgaaaa cacaccatat
181 actgtccccc cattgagtga aagggagcac agaccagcca ccgaaccgct tcctggcaca
241 atattggaga tgtgggatgg tgaattctac cattactctg tgtacgtcag cggtggcaaa
301 gccctagggg ttcacaagcc ccctgcagcg ataagcctcg cgacgataga gctcacaccc
361 atatctcttt attggaggcc cgtttacacc cccaactacc tggtctgtcc agacacgttg
421 aaaggcctcg ctggtgagaa gttcccttac acggccttca gcaacaattg ttacaacttc
481 tgttgctggg tgcttgagct caatgacacg tggcttagca ggagaagcat ctccaggacc
541 accggcttct tcaaaccata tcagtcttgg aataggaaac ccctcccaac cgttgatgat
601 ggaaagatca aaaaggtggc caacgcaatt ctctgcgctc ttgggtcatt gttttcaaaa
661 ccaatcaagg acctattggg caaacttaaa ccattgaact tgctgcactt actcgcatca
721 tgtgattgga cgtttgcggg tatagtagag acagtcatcc taatggcgga acttttcaac
781 atcttttgga caccgccaga tgtttccagc ttcatagcct ccctaatagg tgattttgaa
841 ctgcaagggc ctgaggacct ggctgtggag cttgtccccg tggtcatggg tggcatagga
901 atggttctcg gctttactgc cgagaagata ggtcgcatgc tgtcgtcagc tgcatcaacg
961 ctgcgggcat gcaaagactt ggggaattat gcccttgaca tattgaaact ggttatgaag
1021 tggttcttcc caaagaagga agagaaagcc gagatggaga ccctaagggc gattgaggat
1081 gccgtcctag acatggaagc tataggaaac aatcatctca caaccctcct caaggacaag
1141 gatagcctca cggctttcat gaagactctg gatctagaag aggagaaggc aaggaaactg
1201 tccaccaaat catcctcacc agacatcgtc ggcactatta atgccatact ggccaggata
1261 gctgccgcca ggtccctctt acacaaggcc aaagaagaaa tgtttagcag gatcagacct
1321 gtggtcgtca tgatctcggg tagacctggc attggcaaaa cccacatggc aagacacttg
1381 gctaagagta tcgccaacac catgagcggt gaccagagag tagggctcgt cccacgcaac
1441 ggagtcgatc actgggacgc ctacagggga gagagggtgg tcttatggga tgattatggc
1501 atgggaaacc ctgtcaaaga cgccctgaca ctgcaagaac tggctgacac ctgcccagtg
1561 actctaaact gtgataggat tgagaacaag gggaagatgt tcgacagtga tgtcatcata
1621 atcacaacta atttagtcaa cccagcgccc ctcgattatg tgaacttcga ggcgtgctct
1681 agacgggtcg actttctggt ctatgcggag tcaccagaaa ttgagaaggt taagagagat
1741 ttccccggcc aacctgacat gtggaaagat cattttaagc cagacttttc tcacataaaa
1801 ctgactctag ccccacaggg tggatttgac aagaatggca acaccccgca tggtaagggc
1861 accatgcgat ccctaaccca ggggtccctg actgcaaggg ttgcaggtct tgttcatgag
1921 aggagagacg agtttcagct ccagggaaat gacctccaaa catacaactt tgataccaac
1981 agggtctctg catttaggaa gctggccgca gacaacaagt acgggatcat ggagacgatg
2041 agagtgggca cagcgcttaa gagtgtcaag accctggaag acctgaaagt tgccctgagg
2101 gatgtgaaat tcaatgagtg tgagataatt tacaggaact ccaaatatcg agtctcttcc
2161 aatggtaaag gttctgtctc tgttgataaa gtcgaggacc aaacatccca gactgcaaac
2221 gaagtgggtg cagcactcct caggcttagg caggcaagag ccagatacta tgtcagctgc
2281 ttccaagatc ttgtctacac cctaatacag gtcgccggag catcattcgt tgtcaacagg
2341 atctctaaga gattctgctg ggagagatgg gtcaaaccaa ccgagaccca ggaaacgagt
2401 gaatccgaaa aggaagtagc ccaaggcaaa tgggagattg aacccaaaga cacagaacca
2461 gaaggtaaga agggtaagaa caagaaagga agaggtaaga aacacacagc tttctccagc
2521 aaaggcctta gtgatgagga gtatgacgag ttcaagagaa ttagagaaga aaggaacgga
2581 aaatactcca ttgaggaata cctgcaagac cgggatcgct actatgagga agtggcagtt
2641 gcccgggcga cagaggagga cttctgtgaa gaggaggagg ccaagataag acaaagaatc
2701 tttcgtccca caaagaaaca gaggaaggaa gaaagggggg tgcttggttt ggtcactggc
2761 tcagacatca ggaagaggag accagacgat tttcaaccga agggcaacct gtgggcagac
2821 gacaccagga gtgtggatta caacgagaga cttgatttcg aagctccccc gagtgtctgg
2881 tctagaatag tcccattggg tactggctgg ggcttctggg tctcatccaa cctcctgatc
2941 acaacaacac acgtcctgcc taaggggatt aaggaactct ttggagttga agtcaaacag
3001 atccaaattc acaagtctgg agagttctgc aggttcagat tcccaagacc aatcagacca
3061 gatgtcacag ggctcgtgtt ggaggagggt gctccagaag gcactgtctg ctccatactc
3121 gtgaagagac caacaggtga gatgatccct ctggcagtga ggatgggcac gcatgcatcc
3181 atgaaaatac agggtagaac cgtcggtggt cagatgggaa tgcttctcac aggggcaaat
3241 gcgaagaaca tggatcttgg caccggccct ggtgactgcg gttgtcctta catctacaaa
3301 cgtggcaatg atatagttgt cgcgggtgtc cacaccgcag cagcccgggg aggcaacact
3361 gtcatatgtg ccactcaagg gcaagatggg gaggcagtcc ttgagggaaa tgagaacctt
3421 ggaacttact gcggtgcccc aattttgggt ccaggcaagg cgcccaaact tagcacaaag
3481 accaagttct ggcgttcgtc accagacgct ctgccgccag gcacttatga gcctgcctac
3541 ttgggaggca aggaccctag agtagaaaag ggaccatccc tgcagcaagt catgagagac
3601 caactaaaac ctttcacaga acccaggggc aagccaccta gacccgcagt cttagaagaa
3661 gccaaaaaga cagtgatgaa tgttctagaa caaaccattg atcctgctaa gccatggacc
3721 tactcccaag catgcgcttc actggacaag accacctcca gtggtagccc tcatcatgtc
3781 aggaaaaatg accattggaa tggggaatcc tttactggcc cccttgcaga ccaagcatcc
3841 aaagccaacc tcatgtacga gcaggccaaa catgtgcagc ccgtgtacac ggccgcactc
3901 aaagacgagc tagtcaagac tgacaagatc tacaggaaga taaagaaaag gctcttatgg
3961 gggtcggatc ttggtacaat gatcaggtgt gccagggcct ttggtggtct catggatagc
4021 atgaaggcaa gttgcataac cctcccatgt agggtgggaa tgaacatgaa tgaagatggt
4081 cccatcatat ttgacaaaca ctctaagtat aggtaccatt atgatgctga ctattccagg
4141 tgggactcaa cccagcaaag gagcattctc tcggccgcta tggaagtgat ggtgcggttc
4201 tctgccgaac cagagctggc acaagtggtt gcagaggacc tcctggcacc cagccaacta
4261 gatgttggcg actttgtcat ctcagttcag gagggtctgc cgtcaggggt accatgtaca
4321 tcacaatgga attcaatagc acattggatc ctaactttga gtgcaatggc agaagtgtcg
4381 ggtctctcac cagatgttat tcaagcccac tcctgtttct cattttacgg tgatgatgag
4441 atcgtcagca ctgacatcaa ccttgatccc atgaagttga cacagaaact cagagagtat
4501 ggcctagtcc ctactcgacc tgacaaaact gagggtcccc ttgtaataac tgaagatctc
4561 accggcctaa cgttcctgcg taggtcaatt gcacgggatc cagctgggtg gtttggaaaa
4621 ttagaccaag actcaatcct caggcaattg tactggacaa ggggccccaa tcatgagaac
4681 ccatatgaga gcatggtccc ccattcccag cgggccacac agcttatggc ccttctcggt
4741 gaggcttcac tgcatggccc ccagttttac aagaaggtca gcaagatggt cattaacgaa
4801 atcaaaagtg gtggtctgga attctatgtg cccagacaag aggccatgtt cagatggatg
4861 agattctctg acctcagcac atgggagggc gatcgcaatc ttgctcccga gggtgtgaat
4921 gaagatggcg tcgaatgacg ctgctccatc gaatgatggt gctgccaacc tcgtaccaga
4981 ggccaacaat gaggttatgg cacttgagcc ggtggtggga gcttcaatcg cagctcctgt
5041 cgtcggccaa caaaacataa ttgacccctg gattagagaa aattttgttc aagcaccaca
5101 gggtgagttc actgtctcgc cgaggaactc gcctggtgag atgctattaa atcttgaatt
5161 aggcccagaa ctcaaccctt acctaagtca cctgtcccgt atgtataatg ggtatgctgg
5221 tggcatgcag gttcaggtgg tcctagctgg gaatgcgttc acagctggga aaatcatctt
5281 tgccgctgtg ccaccacatt tccccgtgga aaacatcagt gcagctcaaa taactatgtg
5341 cccccatgtg attgttgatg tgagacaact tgagccagta ctcctacccc ttcctgacat
5401 aaggaatagg ttctttcatt acaatcagga gaacactccc cggatgagac tagtggctat
5461 gctttacacc cccctgaggg ccaactctgg tgaagatgtg tttactgtct cttgtagggt
5521 cttaacccgt cctgcccctg attttgaatt tactttcttg gtaccaccaa ctgttgaatc
5581 aaagactaag ccttttacac tacccatatt aactcttggt gagctatcta attccagatt
5641 cccagcccca atagatatgt tgtacactga tccaaatgag ggaattgtag tccaaccaca
5701 aaatggtagg tgcactcttg atggcactct gcaaggcacc acacaactgg tccccaccca
5761 aatttgtgct ttcagaggca cactaattgg ccaaacatca agatcttcag actcaaccga
5821 ctcagcccct cggaggaggg atcacccact ccatgttcaa ttaaagaacc ttgatggcac
5881 gcagtatgac cctactgatg aagtgccagc agtcctcggt gccattgatt tcaaggggac
5941 tgtctttggg gtggccagtc agagggacgt gtcaggacaa caggtgggag caactcgagc
6001 ccatgaagtg cacatcaaca caaccgatcc taggtataca ccaaaactag ggtccattct
6061 catgcactca gagtcggacg acttcgtgac tggacagccg gtccgcttca cacccatagg
6121 aatgggcgac aacgactggc atcagtggga gctgcccgac tattctggac acctaaccct
6181 aaacatgaac cttgccccag cagttgctcc tgcatttccg ggtgagagga ttcttttctt
6241 caggtcaatt gtcccgtctg ctggtggcta cggctctggg caaatagatt gcctcatacc
6301 acaggagtgg gttcagcatt tctaccaaga agctgcacca tcccaatctg ccgtggcact
6361 catcaggtat gtcaaccctg acacaggcag aaacatcttt gaggctaaat tgcacaggga
6421 aggcttcatc accgtggcta attctggcaa caaccccatt gttgtccccc ctaatgggta
6481 ttttaggttt gaggcttggg tgaatcaatt ttacactttg acccccatgg gaactggtca
6541 ggggcgtagg aggaatcaat aatggctagt gcttttcttg caggtcttgc tggtgacgtc
6601 ataacaaatg gcgttggatc tctaataaat gctggagcta atgcagttaa tcagaaagtt
6661 gaatatgatt ttaataaaca gcttcaaatg gcatcattta aacatgataa agagatgttg
6721 caatcacaag tgctggcgac caagcagttg cagcaggaga tgatgaacat taggcagggg
6781 gtgttgaccg ctggcggctt ctcccccgcg gatgctgcta gaggggctgt caatgcccca
6841 atgacaaaga ttctggactg gaatggcacc aggtattggg caccaaacag catgaaaacc
6901 acaagttatt caggacagtt ttctagcagc cccgttcata agtctcctgc tcctccccag
6961 catgttgttt catcaaagag tagattgcaa aatgattctg ctagtgtata tagttctcct
7021 tcttctgttt cttcacaatc aactcattca acagtgctgt cagcaggaac tgggtcctcc
7081 aggtccatct ccacacctac agctaccccc accttgtcta ggaccagcga ctgggttagg
7141 ggacagaacg agaggcttgg cccgttcatg gatggtgctc tccaaactgc ctttgtcaca
7201 cctccatcga gcaaagcttc ttcaaatggt acggtctcaa ccgttcccaa agctgttttg
7261 ga
//