Typing tool
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Typing tool
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Complete norovirus genomes
| MN416945 | GII.3 | |
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| GII.P12 |
ORF1: 1..4535
ORF2: 4516..6162
ORF3: 6162..6422
LOCUS MN416945 6422 bp RNA linear VRL 31-DEC-2019
DEFINITION Norovirus GII isolate G19_047 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION MN416945
VERSION MN416945.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 6422)
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JOURNAL Unpublished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 6422)
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..6422
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_047"
/isolation_source="digestive tissue"
/host="shellfish"
/db_xref="taxon:122929"
/country="France"
/collection_date="11-Nov-2018"
/note="genotype: GIIP12, GII.3"
gene <1..4535
/gene="ORF1"
CDS <1..4535
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="QEM24856.1"
/translation="KLHGETFPYTAFDNNCYAFCCWVLDLNDSWLSRRMIQRTTGFFR
PYQDWNRKPLPTMDDSKVKKVANIFLCALSSLFTRPIKDIIGKVRPLNILNILASCDW
TFAGIVESLILLAELFGVFWTPPAVSAMIAPLLGDYELQGPEDLAVELVPVVMGGIGL
VLGFTKEKIGKMLSSAASTLRACKDLGAYGLEILKLVMKWFFPKKEEANELAMVRSIE
DAVLDLEAIENNHMTALLKDKDSLATYMRTLDLEEEKARKLSTKSASPDIVGTINALL
ARIAAARSLVHRAKEELSSRPRPVVVMISGRPGIGKTHLARELARKIAASLTGDQRVG
LIPRNGVDHWDAYKGERVVLWDDYGMSNPIHDALRLQELADTCPLTLNCDRIENKGKV
FDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYAEAPEVEKAKRDFPGQPDMWKNA
FSSDFSHIKLALAPQGGFDKNGNTPHGKGVMKTLTTGSLIARASGLLHERLDEYELQG
PTPTTFNFDRNKVLAFRQLAAENKYGLLDTMRVGKQLKDVKTMSDLKQALKNVAIKSC
QIVYGGCTYRLESDGKGDVKVDRVQNATVQTNNELAGALHHLRCARIRYYVKCVQEAL
YSIIQIAGAAFVTTRIVKRMNIQDLWSKPQVEDTEEIASKDGCPKPQDDEEFVVSSDD
IKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREERNGKYSIEEYLQDRDKYY
EEVAIARATEEDFCEEEEAKIRQRIFRPTRKQRKEERASLGLVTGSEIRKRNPDDFKP
KGKLWADDDRSVDYNERLNFEAPPSIWSRIVNFGSGWGFWVSPSLFITSTHVIPQGAQ
EFFGVSIKQIQIHKSGEFCRLRFPKPIRTDVTGMILEEGAPEGTVVTLLIKRPTGELM
PLAARMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTPGDCGCPYIYKRGNDYVV
IGVHTAAARGGNTVICATQGSEGEATLEGGDSKGTYCGAPILGPGSAPKLSTKTKFWR
SSTAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFTEPRGRPPKPSVLEAAKK
TIVNVLEQTIDPPQKWSFAQACASLDKTTSSGHPHHMRKNDCWNGESFTGKLADQASK
ANLMFEEGKNMTPVYTGALKDELVKTDKIYGKIKKRLLWGSDLATMIRCARAFGGLME
ELKAHCVTLPVRVGMNMNEDGPIIFERHSRYKYHYDADYSRWDSTQQRAVLAAALEIM
VKFSPEPHLAQKVAEDLLSPSVMDVGDFKISINEGLPSGVPCTSQWNSIAHWLLTLCA
LSEVTNLSPDIIQANSLFSFYGDDEIVSTDIKLDPEKLTAKLKEYGLKPTRPDKTEGP
LVISEDLNGLTFLRRTVTRDPAGWFGKLEQSSILRQIYWTRGPNHEDPSETMIPHSQR
PIQLMSLLGEAALHGPAFYSKISKLVIAELKEGGMDFYVPRQEPMFRWMRFSDLSTWE
GDRNLAPSFVNEDGVE"
mat_peptide <1..425
/gene="ORF1"
/product="p48"
mat_peptide 426..1523
/gene="ORF1"
/product="NTPase"
mat_peptide 1524..2060
/gene="ORF1"
/product="p22"
mat_peptide 2061..2459
/gene="ORF1"
/product="VPg"
mat_peptide 2460..3002
/gene="ORF1"
/product="Pro"
mat_peptide 3003..4532
/gene="ORF1"
/product="RdRp"
gene 4516..6162
/gene="ORF2"
CDS 4516..6162
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QEM24857.1"
/translation="MKMASNDAAPSNDGAAGLVPEINNEAMALDPVAGAAIAAPLTGQ
QNIIDPWIMSNFVQAPGGEFTVSPRNSPGEVLLNLELGPEINPYLAHLARMYNGYAGG
FEVQVVLAGNAFTAGKIIFAAIPPNFPIDNLSAAQITMCPHVIVDVRQLEPVNLPMPD
VRNNFFHYNQGSDSRLRLIAMLYTPLRANNSGDDVFTVSCRVLTRPSPEFSFNFLVPP
TVESKTKPFTLPILTISEMSNSRFPVPIDSLHTSPTENIVVQCQNGRVTLDGELMGTT
QLLPSQICAFRGVLTRSTSRASDHADTATPRLFNYYWHIQLDNLNGTPYDPAEDIPGP
LGTPDFRGKVFGVASQRNPDSTTRAHEAKVDTTAGRFTPKLGSLEISTESDDFDQNQP
TRFTPVGIGVDHEADFQQWSLPDYSGQFTHNMNLAPAVAPNFPGEQLLFFRSQLPSSG
GRSNGILDCLVPQEWVQHFYQESAPAQTQVALVRYVNPDTGRVLFEAKLHKLGFMTIA
KNGDSPITVPPNGYFRFESWVNPFYTLAPMGTGNGRRRVQ"
gene 6162..>6422
/gene="ORF3"
CDS 6162..>6422
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QEM24858.1"
/translation="MAGAFIAGLAGDILTNTVGSLVNAGANAINQKVDFENNKYLQNA
SFNHDKEMLNAQIEATKRLQADMIAIKQGVLTAGGFSPTDAAR"
ORIGIN
1 gaaagttgca tggggagacg ttcccttata cagcctttga caacaactgc tatgccttct
61 gctgttgggt gcttgacttg aacgattcat ggctgagcag aaggatgata cagaggacaa
121 caggcttctt ccgaccctac caggactgga acaggaaacc cctccccacg atggatgact
181 ccaaagtgaa aaaggtggcc aacatattct tgtgtgcgct atcttcgcta ttcactaggc
241 ccatcaaaga tataatagga aaggtgagac cgctcaacat ccttaacatc ctggcctcat
301 gtgattggac ttttgcaggc atagtggaat ctttgatcct cttggcagag ctctttggag
361 ttttctggac acccccagct gtgtctgcga tgatcgcccc cttactaggt gactacgaac
421 tgcaggggcc tgaggacctt gcagtggaac tcgtaccagt agtgatggga gggattggtt
481 tggtgttagg attcaccaaa gagaagatcg gaaaaatgtt gtcatccgct gcttccacct
541 taagagcttg taaagacctt ggtgcatacg ggctggaaat cctaaaattg gtcatgaaat
601 ggttcttccc aaagaaagag gaagcaaatg agctagctat ggtgaggtcc atcgaggatg
661 cggtgctgga cctcgaagca attgagaaca accacatgac tgccctcctc aaagacaaag
721 acagcttggc aacctacatg aggacccttg acctcgagga ggagaaagcc aggaagcttt
781 caaccaagtc tgcttcacct gacatcgtgg gcacaatcaa cgctcttctg gcgagaatcg
841 ccgctgcacg ttccctggtg catcgggcga aagaggaact ctccagcaga ccaagacctg
901 ttgttgttat gatatcaggt aggccaggga tagggaaaac tcaccttgcc agggagctag
961 ccaggaagat cgcagcttca cttacagggg accagcgcgt gggtctcatc cctcgcaatg
1021 gcgttgacca ctgggatgca tacaagggag aaagagtcgt cctatgggac gattatggaa
1081 tgagcaatcc catccacgac gccctcaggt tgcaggaact tgctgacacc tgccccctta
1141 cgctaaactg tgacaggatt gagaacaaag gaaaggtctt tgacagtgat gccataatca
1201 tcaccaccaa tctagccaac ccagcaccat tggactatgt caactttgaa gcatgctcga
1261 ggcgcattga cttcctcgtg tacgcagaag cccctgaggt cgagaaagca aagcgtgatt
1321 tcccaggtca acctgacatg tggaagaacg catttagctc tgacttctcg cacataaaac
1381 tggcgctggc tccccagggt ggtttcgaca agaacggaaa caccccacac gggaaaggcg
1441 tcatgaaaac cctcaccact ggttccctca tcgcccgagc ttcagggtta ctccacgaga
1501 ggttggatga atatgagctg cagggcccaa ctcccaccac ctttaacttt gaccgcaaca
1561 aggtgcttgc gttcagacaa cttgctgccg aaaacaagta tggactgttg gacacaatga
1621 gagttggaaa acagctcaag gatgtcaaga ctatgtcaga ccttaaacag gcactcaaga
1681 atgtcgcaat taagagttgt cagatagtgt atggtggctg cacctacagg cttgagtctg
1741 atggcaaggg tgatgtaaaa gttgacagag ttcagaacgc cacagtgcag accaacaatg
1801 agcttgccgg cgcactacac catcttaggt gcgccagaat caggtattat gtcaagtgtg
1861 ttcaggaggc cctgtattcc atcatccaaa tcgctggggc tgcatttgtt accacgcgca
1921 ttgtcaagcg catgaacata caagatctct ggtccaagcc acaggtggaa gacacagagg
1981 aaattgctag caaggatggg tgcccaaaac cccaggatga tgaagagttt gttgtctcat
2041 ccgatgacat caaaaccgag ggcaagaaag ggaagaacaa gtctggccgt ggtaagaagc
2101 acacagcatt ttcaagtaaa ggtctcagtg atgaagagta cgatgagtac aaaagaatca
2161 gggaagagag aaatggcaag tactccatag aggaatacct acaggacaga gacaaatact
2221 atgaggaggt ggccatagcc agggcaactg aggaagactt ctgtgaagaa gaagaggcca
2281 agatccgaca gaggatcttc aggccaacaa ggaaacaacg caaagaggag agagcctctc
2341 tcggtttggt cacaggttct gaaatcagga agaggaaccc agacgacttc aagcctaaag
2401 gaaagctgtg ggctgatgat gacaggagtg ttgactacaa tgagagactc aattttgaag
2461 ccccaccaag catctggtcg aggatagtca actttggctc aggttggggc ttttgggttt
2521 cccccagcct gttcataaca tcaactcatg tcatacccca gggcgcacag gagttctttg
2581 gtgtatccat caaacaaatc cagatacaca aatcaggtga attctgccgc ttgaggtttc
2641 caaagccgat cagaactgac gtgacaggca tgatcttaga agaaggtgca cccgaaggga
2701 ccgtggtcac attactcatc aaaagaccaa ctggagagct catgcccctg gcagctagaa
2761 tgggaaccca tgcgaccatg aagatccaag ggcgcactgt tgggggtcaa atgggcatgc
2821 tcctaactgg atccaacgcc aagagtatgg acctgggcac cacaccaggt gactgtggct
2881 gcccctacat ttacaagagg gggaatgact acgtggtcat tggggtccat acagctgctg
2941 cccgtggggg aaacactgtt atttgtgcca cccaggggag cgagggagaa gccacacttg
3001 aaggcggtga tagcaagggg acctactgcg gtgcaccaat cttaggtcca ggaagtgccc
3061 caaaactcag caccaagact aagttctgga ggtcatccac ggcaccactc ccacctggta
3121 cctatgaacc agcttacctc ggtggcaagg accccagagt taagggtggc ccttcactgc
3181 aacaagttat gagggatcaa ctgaaaccat tcactgagcc taggggtagg ccaccaaaac
3241 caagtgtgct agaagctgcc aagaaaacca tcgtcaatgt cctagaacag acaattgacc
3301 cacctcaaaa atggtcgttt gcgcaggcat gcgcatccct agacaagacc acttctagcg
3361 gtcatccgca ccacatgcgg aagaatgact gctggaacgg ggagtccttc acaggaaaat
3421 tggcagacca ggcttccaag gccaacctga tgtttgagga ggggaagaac atgaccccag
3481 tttacacggg tgcgcttaag gacgagctgg tcaagactga caagatttat ggtaagatca
3541 aaaagaggct tctttggggt tcggacctgg cgaccatgat tcggtgcgct cgagcattcg
3601 ggggtctgat ggaggaactc aaagcacatt gtgtcacact acctgttagg gtgggtatga
3661 atatgaatga ggatggccct atcatctttg agagacactc cagatataaa tatcactatg
3721 atgctgatta ctcccggtgg gattcaacac aacaaagagc tgtgttggca gcagccttag
3781 aaatcatggt caagttttcc ccagagccac acctggccca aaaggttgca gaagaccttc
3841 tttcccccag cgtgatggac gtgggtgatt tcaaaatatc aatcaatgag ggtctcccct
3901 ccggagtgcc ctgcacctcc caatggaatt ccatcgccca ctggctcctc actctctgtg
3961 cactctccga ggttacaaac ctgtcccctg atattattca ggctaactct ctcttttctt
4021 tctacggtga tgatgaaatt gtgagtacag acataaaatt ggacccagaa aaactgacag
4081 caaagctcaa ggaatacggg ttgaaaccga cccgccctga caaaactgaa gggccccttg
4141 tcatttccga agacctgaat ggcctaacct tcctgcgaag gaccgtgaca cgcgacccag
4201 caggctggtt tggaaagttg gaacagagct caatactcag acaaatatac tggactagag
4261 gccccaacca tgaagatcca tctgaaacaa tgataccaca ctcccagagg cccatacaat
4321 tgatgtcttt gctgggtgag gcagcactcc acggcccagc attctacagc aaaatcagca
4381 aactggtcat tgcagaattg aaggagggtg gcatggattt ttacgtgcca agacaagaac
4441 caatgttcag atggatgaga ttctcggatc tgagcacgtg ggagggcgat cgcaatctgg
4501 ctcccagttt tgtgaatgaa gatggcgtcg aatgacgccg ctccatctaa tgatggtgcc
4561 gccggcctcg tcccagagat caacaatgag gcaatggcgc tagatccagt ggcgggtgca
4621 gcgatagcag cacccctcac cggccagcaa aatataattg atccctggat tatgagtaat
4681 tttgtgcaag cacctggtgg tgagtttaca gtatccccta gaaattcccc tggtgaagtg
4741 ctcctcaatt tggaattggg cccagagata aatccctatc tggcccatct tgctagaatg
4801 tataatggtt atgcaggtgg gtttgaagtg caggtagtcc tggctggaaa tgcgtttaca
4861 gcaggaaaga taatctttgc agctataccc cctaacttcc caattgacaa tctaagtgca
4921 gcacagatca caatgtgccc acatgtgatt gtggatgtca ggcagctgga accggtcaac
4981 ctcccgatgc ctgacgttcg caacaacttc ttccactaca accaagggtc tgattcgaga
5041 ttgcgcttga ttgcaatgct gtacacacct cttagggcaa ataattctgg agatgatgtt
5101 ttcactgtgt cttgtagagt gctgactaga cctagtcctg aattttcatt taacttcctt
5161 gtgccaccca ctgtggagtc aaagacaaaa cctttcaccc tcccaattct gactatttct
5221 gaaatgtcta attctaggtt tccagtgccg attgattctc tgcacaccag cccaactgag
5281 aatattgttg tccagtgtca aaatggacgc gtcactcttg atggcgagtt gatgggcacc
5341 actcagctct tacctagtca aatctgtgct ttcaggggcg tgctcactag atcaacaagc
5401 agggctagtg accatgccga cacagcaacc cctagattgt ttaattatta ttggcacata
5461 caattggata atctaaatgg gactccttat gatcctgcag aagacatacc aggcccccta
5521 gggacaccag atttccgggg caaagtcttt ggcgtggcca gccaaagaaa ccccgacagt
5581 acaactagag cacatgaagc aaaggtggac acaacagctg gtcgcttcac cccaaaacta
5641 ggctcattag agatatccac tgaatctgat gactttgacc aaaaccaacc aacaagattt
5701 accccagttg gcattggggt tgaccacgag gcagacttcc aacaatggtc cttacccgat
5761 tactctggcc agttcactca caacatgaac ttagccccag ctgttgctcc caacttccct
5821 ggtgagcagc tccttttctt ccgctcacag ttaccatctt ctggtgggcg atccaatggg
5881 attctagatt gcctggtccc ccaagaatgg gtccagcact tctaccaaga atcagccccc
5941 gcacaaaccc aggtggctct ggttagatat gtcaaccctg acactggtag agtgttgttt
6001 gaggccaagt tgcacaaatt aggtttcatg actatagcta agaatggtga ttctccaata
6061 actgtccccc caaatggata ctttaggttt gaatcttggg tgaacccatt ttatacactt
6121 gcccccatgg gaactgggaa tgggcgtaga agagttcaat aatggctggt gcttttatag
6181 caggattagc tggtgacata ctcacaaaca ctgtagggtc tctagtcaat gcaggggcta
6241 atgctattaa tcaaaaagtt gattttgaaa ataataaata tttgcaaaat gcttccttca
6301 atcatgataa ggaaatgtta aatgcacaga ttgaggcaac aaagagatta caggctgaca
6361 tgattgctat caaacaaggg gttttgaccg ctggcggctt ttcccccact gatgcagctc
6421 gc
//