Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| MK907791 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..4411
ORF2: 4392..6014
ORF3: 6014..6509
LOCUS MK907791 6509 bp RNA linear VRL 02-NOV-2019
DEFINITION Norovirus GII isolate G19_022 nonstructural polyprotein (ORF1)
gene, partial cds; VP1 (ORF2) gene, complete cds; and VP2 (ORF3)
gene, partial cds.
ACCESSION MK907791
VERSION MK907791.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 6509)
AUTHORS Strubbia,S., Phan,M.V., Schaeffer,J., Koopmans,M., Cotten,M. and Le
Guyader,S.
TITLE Optimisation of agnostic metagenomic approaches to characterise
human enteric viruses in sewage
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 6509)
AUTHORS Le Guyader,S. and Strubbia,S.
TITLE Direct Submission
JOURNAL Submitted (09-MAY-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..6509
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="G19_022"
/isolation_source="sewage"
/db_xref="taxon:122929"
/country="France: Nantes"
/collection_date="05-May-2014"
/note="genotype: GII.17-GII.P17"
gene <1..4411
/gene="ORF1"
CDS <1..4411
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="QCO93072.1"
/translation="FFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDII
GKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARRL
STKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVK
TLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGNVVVEKVQNATVQTNNELVGALHH
LRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRG
GCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP
EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAK
LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTR
GPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPR
QESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..301
/gene="ORF1"
/product="p48"
mat_peptide 302..1399
/gene="ORF1"
/product="NTPase"
mat_peptide 1400..1936
/gene="ORF1"
/product="p22"
mat_peptide 1937..2335
/gene="ORF1"
/product="VPg"
mat_peptide 2336..2878
/gene="ORF1"
/product="Pro"
mat_peptide 2879..4408
/gene="ORF1"
/product="RdRp"
gene 4392..6014
/gene="ORF2"
CDS 4392..6014
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="QCO93073.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6014..>6509
/gene="ORF3"
CDS 6014..>6509
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="QCO93074.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSG"
ORIGIN
1 attcttcaaa ccttatcagg attggaacag aaaaccctta ccaaccatgg atgaaccgaa
61 aatcaagaag gccgcgaatg ctgtcctatg cgctctctcc tcactcttca ctagacccat
121 taaggacatc attggaaagc ttagaccact gaacattctt aatatactgg caacctgcga
181 ttggactttt gcaggcatag tggaatcctt gatccttctt gctgaactct ttggggtgtt
241 ctggacaccc ccagatgtgt ctgcgatgat tgctccctta ctcggtgact acgagatgca
301 aggccccgaa gacctggccg tggaacttgt gcccgtggtg atgggaggaa taggtttggt
361 gttaggattc accaaagaaa agatcggcaa gatgctttca tcagctgcga ccacacttag
421 ggcctgcaag gatctaggat cttatggatt ggagatactc aaattggtca tgaagtggtt
481 cttccccaag aaggaggagg ctaacgaact agccatggtg agggccattg aggatgcagt
541 cctggatttg gaggcaatag aaaacaatca catgaccacc cttctcaagg ataaagacag
601 cctggccaca tacatgagga ctcttgactt ggaagaagag aaagcaagga gactgtcaac
661 caaatcggcg tcacctgaca tcgtgggtac aataaacgca ttattggcta ggatagcagc
721 cgccaggtca ctggtccaca aggctaagga ggagctctcg agcagacaga gacctgttgt
781 tgtaatgata tcaggtagac caggtatagg aaagacccat ctggccagag agctagccaa
841 gaaagttgcg tcaacactgt caggcgacca aaggattgga ctggtaccta gaaatggcgt
901 cgaccattgg gacgcctaca agggagaaag ggtggttctg tgggatgatt atggtatgag
961 caaccctata caggacgcac tgaggctcca agaattggct gacacctgtc ctctgaccct
1021 aaattgtgat aggattgaaa acaaaggaaa agtgttcgac agtgatgcca taattataac
1081 aaccaacctt gcaaacccag caccactaga ctatgtcaac tttgaggcct gctctagacg
1141 catagacttc ttggtgtatg cagacgcacc tgacattgag aaggctaagc gtgacttccc
1201 tggccaacca gatatgtgga aagaccattt cagaccagac ttctcacaca ttaaacttca
1261 gctggcacca cagggaggtt ttgacaaaaa tggcaacacc ccacatggca aaggtgtagt
1321 gaagtccctg acgattggtt ctctgatcgc cagggcctcc ggcttgctcc acgagagaat
1381 ggatgaattc gagctccaag gctctgacct gccaaccttc aattttgacc gcaacaaagt
1441 cgccgccttc agacaattag cagctgaaaa caaatatggt cttatggaca cactgagggt
1501 cggcaaccaa ctgaaaagtg ttaagaccct ggatgagctg aagcaggcca taaagaacat
1561 cagtatcaag aagtgtcaga tagtgtataa tggatgcacc tataccatgg aatctgatgg
1621 gaggggcaat gttgtggttg aaaaggtaca aaacgcaaca gttcaaacca acaatgaact
1681 tgtaggggcg ctccaccacc tgagatctgc aaggataaga tactatgtta aatgtttcca
1741 agaagccatt tactctctac tccaaattgc tggtgcagcc ttcgtcacct cacgcatcgt
1801 gaggcgcatg aacatatcaa acctctggtc gaagccaccc atcgaggagg gtgatgagcc
1861 tgaagacaga ggaggatgcc ccaagcccag ggatgaagat gacctcacta ttgactctag
1921 agacattaaa gtggaaggga agaagggcaa gaacaagtct ggccggggca agaaacacac
1981 agccttctct tccaagggcc tcagtgatga agagtacgat gagtacaaga gaatcagaga
2041 ggagaggaat ggcaaatact caatagagga atacctccaa gatagggaca gatactatga
2101 agagcttgcc attgctaagg ccactgagga ggacttctgt gaggaggagg agatcaaaat
2161 ccgccagaga atcttccgac ccaccaggaa gcagcggaaa gaggaaaggg ccacgcttgg
2221 gcttgtcaca ggatcggaaa tcagaaagag gaatccagat gactttaaac caaaaggaaa
2281 attgtgggct gatgacaaca ggagcgtgga ttacaatgag aggatagatt ttgaggctcc
2341 cccgagtgtt tggtctagga tagtcaactt tggcacaggc tggggattct gggtttctcc
2401 aagtctcttt ataacttcaa cacacgtcat accaaaagga atcactgagg cctttggagt
2461 gcccataaac caaatccaaa ttcacaaatc tggagaattt tgccgcttgc ggtttccaaa
2521 gccaattaga ccagacgtga gtgggatgat cttggaagag ggcgcccctg aaggcactgt
2581 tgtgtctatt ctcatcaaaa ggacaacagg ggagctgatg cctcttgcag tcagaatggg
2641 gactcatgcc acaatgaaaa tccaaggtag aacggtgggt ggtcagatgg gtatgcttct
2701 cactggctca aatgctaaaa gcatggatct aggcacaacg ccaggtgact gcggatgtcc
2761 atacatatac aaaaggggca atgaccttgt ggtcattggg gtgcacactg cagcagctcg
2821 tggaggcaac acggtcatat gtgccacaca gggaagtgaa ggtgaagcca ctcttgaagg
2881 aggtgacaac aagggtacct attgtggagc ccccattttg ggacctggca atgcaccaaa
2941 attgagcaca aagacaaaat tctggagatc ctctaacgca ccgcttcccc caggtactta
3001 tgaaccagca taccttggtg ggagagaccc gcgcgtgaag ggaggcccat ctctgcaaca
3061 agttatgaga gaccaactta aaccttttac agagcccaga ggtaagccac caaacccaaa
3121 tgtcttagag tcagcaaaga agactatcat caatgttctg gaacaaacca ttgacccccc
3181 tcaaaagtgg tcatatgccc aagcttgtgc atccctcgac aagacaacct ccagtggata
3241 cccgcaccac gtccggaaga atgactattg gagtggtgaa tccttcacag gaaaacttgc
3301 agatcaggct tcaaaagcaa atctcatgta tgaggaaggc aagcacatgc aaccagttta
3361 caccgcagca ctcaaagacg agctcgtgaa aactgacaaa atttatggca aaatcaagaa
3421 aagactcctg tggggttctg acctctccac aatgattcga tgcgccagag catttggtgg
3481 tctcatggat gaattcaaag caaattgtat tacactccct atcagagttg gtatgaatat
3541 gaatgaagat ggtcccataa tatttgagaa acactccagg tacaggtacc actatgatgc
3601 tgattactcc cgctgggact ccacacaaca gcgggcagtg ctggaagcgg cacttgaaat
3661 catggtgaga ttttctgctg agccacagct ggcacaaata gtggcagagg acctgctgtc
3721 accaagtgtg gttgatgtgg gcgatttcaa aatcgctatc aatgaaggcc taccatctgg
3781 cgtgccctgc acctcacaat ggaattctat tgcccactgg ttacttacct tgtgtgccct
3841 ttctgaagtg acaggattag gtcctgacat catacaagct aactccatgt actctttcta
3901 tggtgatgat gagattgtga gcacagacat aaaattggac ccagagaaat tgaccgcaaa
3961 gctcaaagaa tatggcctta aacccactcg gcccgacaaa actgaggggc cgttggtgat
4021 tagtgaggac ctgaatgggt tgactttcct ccgccgaaca gtcacccgtg atccagcagg
4081 ttggtttgga aagttggacc aaaactccat cctcaggcag ttgtactgga caagaggacc
4141 caaccatgaa gaccccagtg agaccatgat accacacgca caaagacctg tgcagctcat
4201 ggcactacta ggagaatcct ccctacatgg accctcattt tacagcaagg ttagcaaatt
4261 agtcatatct gaacttaaag agggaggaat ggatttttat gtgcccagac aagagtcaat
4321 gttcagatgg atgaggttct cagatctaag cacatgggag ggcgatcgca atctggctcc
4381 cagttttgtg aatgaagatg gcgtcgaatg acgccgctcc atctaatgat ggtgctgctg
4441 gtctcgtacc agagggcaac aacgagaccc ttcccctaga accagttgcg ggcgcagcta
4501 tagccgcacc cgtcactggc caaaataaca taattgaccc ctggattaga acaaattttg
4561 tgcaagcacc aaatggagag ttcacagtgt cacccagaaa ctctcctgga gaaattttat
4621 taaacttaga gttgggccct gatttgaacc cttatttggc tcatttgtca aggatgtaca
4681 atgggtatgc tggtggagtg gaagttcagg ttctcctggc agggaacgcg ttcactgccg
4741 gaaagatcct cttcgccgcc gtcccgccaa atttcccagt ggaattctta agcccagccc
4801 agatcacaat gctcccacat ttaatagtag atgttaggac tcttgaacca attatgatcc
4861 cactccctga tgttaggaat acattcttcc attatagtaa ccagcctaac agccgcatga
4921 gattagtggc tatgctctat accccactca gatctaatgg ctcaggtgat gatgtcttta
4981 ctgtctcttg cagggttttg actaggccta ctcctgattt tgagttcact tatttagtgc
5041 caccttctgt tgaatctaaa actaagcctt tttccttacc tattttaacc ctttctgagc
5101 tcacaaattc gaggttccca gtccccatcg attcgctttt caccgcccag aataatgtgt
5161 tgcaggtgca gtgtcaaaat ggcaggtgta cacttgatgg tgagttacaa ggcacaaccc
5221 agttgctccc atctggcatc tgtgcattca gaggacgggt gacagcacaa attaaccaac
5281 gtgacaggtg gcacatgcaa ctgcaaaacc tcaatggtac aacatatgac ccaactgatg
5341 atgtgccagc cccgctgggt acacctgact tcaagggcgt cgtgtttggg atggtaagcc
5401 aaagaaatgt gggtaatgat gcgcctggct caaccagagc ccaacaggcg tgggtttcaa
5461 cctatagccc ccaatttgtc cccaaattag gttctgtcaa tcttagaatt agtgataatg
5521 atgatttcca attccagccg acaaaattca caccagtggg cgtcaatgat gacgatgatg
5581 gccacccgtt cagacaatgg gaactaccaa actattcagg ggagcttacc ttgaatatga
5641 atcttgcccc cccagttgct ccaaattttc ctggtgaaca attgttattc ttcagatctt
5701 tcgtgccatg ctcaggaggt tacaaccaag gtattataga ttgtcttatt ccccaagaat
5761 ggatccaaca cttctatcag gaatcagcac cctcccagtc agacgtggcc ctaatcaggt
5821 atgtcaaccc cgatacggga cgtacactgt ttgaagcaaa attgcacaga tctggttaca
5881 ttactgtggc tcactctgga gactatcctc ttgttgttcc ggctaatgga cactttagat
5941 ttgattcttg ggtaaatcag ttttactcac tcgccccaat gggaactggg aatgggcgaa
6001 ggagggctca gtaatggctg gggcttttat tgcaggattg gcaggcgaca tgctcacgtc
6061 atctgtgggc tcccttgtga acgcaggggc aaacgccatc aaccaaaaga tagactttga
6121 aaacaacaaa caactccagt ctgcttcctt tcagcatgat aaagagatgc tccaagcgca
6181 ggtgagggca accaagcagc tgcaatctga aatgatagcc ctaaaacagg gggttttggc
6241 cgcaggcggc ttttccccca ctgatgcagc aaggggatcc attggtgcac ccatgacaaa
6301 ggtgcttgac tggtctggca ctcgatactg ggcgcccaat tccacaaaga caactggcta
6361 ttcgggacaa ttcacctctt cacctgtgca tatgtctagc ccaaatgctc cacaatcaaa
6421 acctgcaaag cctaggtctc tagctccttc ctcctcttct agcagtgtct atagtatgta
6481 tactcaatct actcatttaa catctggct
//