Typing tool
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Typing tool
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Complete norovirus genomes
| OP205536 | GII.17 | |
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| GII.P17 |
ORF1: 1..5108
ORF2: 5089..6711
ORF3: 6711..7490
LOCUS OP205536 7490 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GII isolate RIVM-NOV-2015-0346_R02-12 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP205536
VERSION OP205536.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7490)
AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T.,
Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A.
TITLE Shotgun whole genome sequencing for gastroenteritis surveillance
using Norovirus as a model
JOURNAL Unpublished
REFERENCE 2 (bases 1 to 7490)
AUTHORS Schmitz,D., Zwagemaker,F., van der Veer,B., Vennema,H., Bosch,T.,
Laros,J.F., Koopmans,M.P., de Graaf,M. and Kroneman,A.
TITLE Direct Submission
JOURNAL Submitted (05-AUG-2022) Center for Infectious Diseases,
Rijksinstituut voor Volksgezondheid en Milieu, Antonie van
Leeuwenhoeklaan 9, Bilthoven, Utrecht 3721 MA, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: SPAdes v. v3.11.0
Sequencing Technology :: Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7490
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2015-0346_R02-12"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="2015-11-27"
/note="genotype: GII.17[P17]"
gene <1..5108
/gene="ORF1"
CDS <1..5108
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="UUV60909.1"
/translation="KMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARP
KQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVVQ
PDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAA
ISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDII
GKLRPLNILNTLATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKL
STKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVK
TLDELKQAIKNISIKKCQIVYNGRTYTMESDGRGKVVVEKVQNATVQTNNELVGALHH
LRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRG
GCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRTDVSGMILEEGAP
EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYLYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGHPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAK
LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTR
GPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPR
QESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..998
/gene="ORF1"
/product="p48"
mat_peptide 999..2096
/gene="ORF1"
/product="NTPase"
mat_peptide 2097..2633
/gene="ORF1"
/product="p22"
mat_peptide 2634..3032
/gene="ORF1"
/product="VPg"
mat_peptide 3033..3575
/gene="ORF1"
/product="Pro"
mat_peptide 3576..5105
/gene="ORF1"
/product="RdRp"
gene 5089..6711
/gene="ORF2"
CDS 5089..6711
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUV60910.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQMLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6711..7490
/gene="ORF3"
CDS 6711..7490
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUV60911.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgctg ccgttgctgg caaaaacaac aacaacgaca
61 aggaaaaatc ttcaagtgac agcttgtttg ctaacatgtc tgtcactttt aagaaagccc
121 tcggggcgcg gcctaaacaa ccgcccccgg gagaaacaaa acaaatacaa aaaccaccaa
181 ggccaccgac accggaattg gtgaagagaa tacctccacc cccacccaat ggcgaggatg
241 aaccagggat agtgtacaag gtgggagagg gtgtgtctgg gctgcccgac ctaacaactg
301 tggtacaacc tgacgcacaa aacacagctt atagtgttcc cccacttagc cagagagaag
361 tcggcgaagc taaagaaccg ctgcctggct ccattctgga aatgtgggat ggtgagatct
421 accactatgg gctgtatgtt gagcgggggc atgtgctcgg agtacacaaa ccacctgctg
481 caataagcct tgccaaaatt gaaataacac cgctgtctct ctactggaga gtggtctaca
541 ctccccagta tttgatagat ccaggaactc ttaagaactt gagtggagag actttcccat
601 acacggcctt tgacaacaac tgttatgcct tctgttgttg ggtcctagac ctcaacgact
661 cctggcttag caggagaatg atccaaagaa caactggatt cttcaaacct tatcaggatt
721 ggaacagaaa acccttacca accatggatg aaccgaaaat caagaaggcc gcgaatgctg
781 tcctatgcgc tctctcctca ctcttcacta gacccattaa ggatatcatt ggaaagcttc
841 gaccactgaa cattcttaat acactggcaa cctgcgattg gacttttgca ggcatagtgg
901 aatccttgat ccttcttgct gaactctttg gggtgttctg gacgccccca gatgtgtctg
961 cgatgattgc tcccttactc ggtgactacg agatgcaagg ccccgaagac ctggccgtgg
1021 aacttgtgcc cgtggtgatg ggaggaatag gtttggtgtt aggattcacc aaagaaaaga
1081 tcggcaagat gctttcatca gctgcgacca cacttagggc ctgcaaggat ctaggatctt
1141 atggattgga gatactcaaa ttggtcatga agtggttctt ccccaagaag gaggaggcta
1201 acgaactagc catggtgagg gccattgagg acgcagtcct ggatttggag gcaatagaaa
1261 acaatcacat gaccaccctt ctcaaggata aagacagcct ggccacatac atgaggactc
1321 ttgacttgga agaagagaaa gcaaggaaac tgtcaaccaa atcggcgtca cctgacatcg
1381 tgggtacaat aaacgcatta ttggctagga tagcagccgc caggtcactg gtccacaagg
1441 ctaaggagga gctctcgagc agacagagac ctgttgttgt aatgatatca ggtagaccag
1501 gtataggaaa gacccatctg gccagagagc tagccaagaa agttgcgtca acactgtcag
1561 gcgaccaaag gattggactg gtacctagaa atggcgtcga ccattgggac gcctacaagg
1621 gagaaagggt ggttctgtgg gatgattatg gtatgagcaa ccctatacag gacgcactaa
1681 ggctccaaga attggctgac acctgtcctc tgaccctaaa ttgtgataga attgaaaaca
1741 aagggaaagt gttcgacagt gatgccataa ttataacaac caaccttgca aacccagcac
1801 cactagacta tgtcaacttt gaggcctgct ctagacgcat agacttcttg gtgtatgcag
1861 acgcacctga cattgagaag gctaagcgtg acttccctgg tcaaccagat atgtggaaag
1921 accatttcag accagacttc tcacacatta aacttcagct ggcaccacag ggaggatttg
1981 acaaaaatgg caacacccca catggtaaag gtgtggtgaa gtccctgacg attggttctc
2041 tgatcgccag ggcctccggc ttgctccacg agagaatgga tgaattcgag ctccaaggct
2101 ctgacctgcc aaccttcaat tttgaccgca acaaagtcgc cgccttcaga caattagcag
2161 ctgaaaacaa atatggtctt atggacacac tgagggtcgg caaccaactg aaaagtgtta
2221 agaccctgga tgagctgaag caggccataa agaacatcag catcaagaag tgtcagatag
2281 tgtataatgg acgcacctat accatggaat ctgatgggag gggcaaggtt gtggttgaaa
2341 aggtacaaaa cgcaacagtt caaaccaaca atgaacttgt aggggcgctc caccacctga
2401 gatctgcaag gataagatac tatgttaaat gtttccaaga agccatttac tctctactcc
2461 aaattgctgg tgcagccttc gtcacctcac gcatcgtgag gcgcatgaac atatcaaacc
2521 tctggtcgaa gccacccatc gaggagggtg atgagcctga agacagagga ggatgcccca
2581 agcccaggga tgaagatgac ctcactattg actctagaga cattaaagtg gaagggaaga
2641 agggcaagaa caagtctggc cggggcaaga aacacacagc cttctcttcc aagggcctca
2701 gtgatgaaga gtacgatgag tacaagagaa tcagagagga gaggaatggc aaatactcaa
2761 tagaggaata cctccaagat agggacaggt actatgaaga gcttgccatt gctaaggcca
2821 ctgaggagga cttctgtgag gaggaggaga tcaaaatccg ccagagaatc ttccgaccca
2881 ccaggaagca gcggaaagag gaaagggcca cgcttgggct tgtcacagga tcggaaatca
2941 gaaagaggaa tccagatgac tttaaaccaa aaggaaaatt gtgggctgat gacaacagga
3001 gcgtggatta caatgagagg atagattttg aggctccccc gagtgtttgg tctaggatag
3061 tcaactttgg cacaggctgg ggattctggg tttctccaag tctctttata acttcaacac
3121 acgtcatacc aaaaggaatc actgaggcct ttggagttcc cataaaccaa atccaaattc
3181 acaaatctgg agaattttgc cgcttgcggt ttccaaagcc aattagaaca gacgtgagtg
3241 ggatgatctt ggaagagggc gcccctgaag gcactgttgt gtctattctc atcaaaagga
3301 caacagggga gctgatgcct cttgcagtca gaatggggac tcatgccaca atgaaaatcc
3361 aaggtagaac ggtgggtggt cagatgggta tgcttctcac tggctcaaat gctaaaagca
3421 tggatctagg cacaacgcca ggtgactgcg gatgtccata cttatacaaa aggggcaatg
3481 accttgtggt cattggggtg cacactgcag cagctcgtgg aggcaacacg gtcatatgtg
3541 ccacacaggg aagtgaaggt gaagccactc ttgaaggagg tgacaacaag ggtacctatt
3601 gtggagcccc cattttggga cctggcaatg caccaaaatt gagcacaaag acaaaattct
3661 ggagatcctc taacgcaccg cttcccccag gtacttatga accagcatac cttggtggga
3721 gagacccgcg cgtgaaggga ggcccatctc tgcaacaggt tatgagagac caacttaaac
3781 cttttacaga gcccagaggg aagccaccaa acccaaatgt cttagagtca gcaaagaaga
3841 ctatcatcaa tgttctggaa caaaccattg acccccctca aaaatggtca tatgcccaag
3901 cttgtgcatc cctcgacaag acaacctcca gtggacaccc gcaccacgtc cggaagaatg
3961 actattggag tggtgaatcc ttcacaggaa aacttgcaga tcaggcgtca aaagcaaatc
4021 tcatgtatga ggaaggcaag cacatgcaac cagtttacac cgcagcactc aaagacgagc
4081 tcgtgaaaac tgacaaaatt tatggcaaaa tcaagaaaag actcctgtgg ggttctgacc
4141 tctccacaat gattcgatgc gccagagcat ttggtggtct catggatgaa ctcaaagcac
4201 attgtattac actccctatc agagttggta tgaatatgaa tgaagatggt cccataatat
4261 ttgagaaaca ctccaggtac aggtaccact atgatgctga ttactcccgc tgggactcca
4321 cacaacagcg ggcagtgctg gaagcggcac ttgaaatcat ggtaagattt tctgctgagc
4381 cacagctggc acaaatagtg gcagaggacc tgctgtcacc aagtgtggtt gatgtgggcg
4441 atttcaaaat cgctatcaat gaaggtctac catctggcgt gccttgcacc tcacaatgga
4501 attctattgc ccactggtta cttaccttgt gtgccctttc tgaagtgaca ggattaggtc
4561 ctgacatcat acaagctaac tccatgtact ccttctatgg tgatgatgag attgtgagta
4621 cagacataaa attggaccca gagaaattga ccgcaaagct caaagaatat ggtcttaaac
4681 ccactcggcc cgacaaaact gaggggccgt tggtgattag tgaggacctg aatgggttga
4741 ctttcctccg ccgaacagtc acccgtgatc cagcaggttg gtttggaaag ttggaccaaa
4801 actccatcct caggcagttg tactggacaa gaggacccaa ccatgaagac cccagtgaga
4861 ccatgatacc acacgcacaa agacctgtgc agctcatggc actactagga gaatcctccc
4921 tacatggacc ctcattttac agcaaggtta gcaaattagt catatctgaa cttaaagagg
4981 gaggaatgga tttttatgtg cccagacaag agtcaatgtt cagatggatg aggttctcag
5041 atctaagcac atgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg
5101 tcgaatgacg ccgctccatc taatgatggt gctgctggtc tcgtaccaga gggcaacaac
5161 gagacccttc ccctagaacc agttgcgggc gcagctatag ccgcacccgt cactggccaa
5221 aataacataa ttgacccctg gattagaaca aattttgtgc aagcaccaaa tggagagttc
5281 acagtgtcac ccagaaactc tcctggagaa attttattaa acttagagtt gggccctgat
5341 ttgaaccctt atttggctca tttgtcaagg atgtacaatg ggtatgctgg tggagtggaa
5401 gttcaggttc tcctggcagg gaacgcgttc actgccggaa agatcctctt cgccgccgtc
5461 ccgccaaatt tcccagtgga attcttaagc ccagcccaga tcacaatgct cccacattta
5521 atagtagatg ttaggactct tgaaccaatt atgatcccac tccctgatgt taggaataca
5581 ttcttccatt atagtaacca gcctaatagc cgcatgagat tagtggctat gctctatacc
5641 ccactcagat ctaatggctc aggtgatgat gtctttactg tctcttgcag ggttttgact
5701 aggcctactc ctgattttga gttcacttat ttagtgccac cttctgttga atctaaaact
5761 aagccttttt ccttacctat tttaaccctt tctgagctca caaattcgag gttcccagtc
5821 cccatcgatt cgcttttcac cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc
5881 aggtgcacac ttgatggtga gttacaaggc acaacccagt tgctcccatc tggcatctgt
5941 gcattcagag gacgggtgac agcacaaatt aaccaacgtg acaggtggca catgcaactg
6001 caaaacctca atggtacaac atatgaccca actgatgatg tgccagcccc gctgggtaca
6061 cctgacttca agggcgtcgt gtttgggatg gtaagccaaa gaaatgtggg taatgatgcg
6121 cctggctcaa ccagagccca acaggcgtgg gtttcaacct atagccccca atttgtcccc
6181 aaattaggtt ctgttaatct tagaattagt gataatgatg atttccaatt ccagccaaca
6241 aaattcacac cagtgggcgt caatgatgac gatgatggcc acccgttcag acaatgggaa
6301 ctaccaaact attcagggga gcttaccttg aatatgaatc ttgccccccc agttgctcca
6361 aattttcctg gtgaacaaat gttattcttc agatctttcg tgccatgctc aggaggttac
6421 aaccaaggta ttatagattg tcttattccc caagagtgga tccaacactt ctatcaggaa
6481 tcagcaccct cccagtcaga cgtggcccta atcaggtatg tcaaccccga cacgggacgt
6541 acactgtttg aagcaaaatt gcacagatct ggttacatta ctgtggctca ctctggagac
6601 tatcctcttg ttgttccggc taatggacat tttagatttg attcttgggt aaatcagttt
6661 tactcactcg ccccaatggg aactgggaat gggcgaagga gggctcagta atggctgggg
6721 ctttcattgc aggattggca ggcgacatgc tcacgtcatc tgtgggctcc cttgtgaacg
6781 caggggcaaa cgccatcaac caaaagatag actttgaaaa caacaaacaa ctccagtctg
6841 cttcctttca gcatgataaa gagatgctcc aagcgcaggt gagggcaacc aagcagctgc
6901 aatctgaaat gatagcccta aaacaggggg ttttggccgc aggcggcttt tcccccactg
6961 atgcagcaag gggatccatt ggtgcaccca tgacaaaggt gcttgactgg tctggtactc
7021 gatactgggc gcccaattcc acaaagacaa ctggctattc gggacaattc acctcttcac
7081 ctgtgcatat gtctagcccg aatgctccac aatcaaaacc tgcaaagcct aggtctctag
7141 ctccttcctc ttcttctagc agtgtctata gtatgtatac tcaatctact catttaacat
7201 ctggctcttc tagtaatgct tcttctgcct ccacaaaatt gacaaattta agctctggct
7261 cctctcaaaa cagaacagca gagtgggtaa atcaacagag aagtcttagc cctttcatga
7321 gtggcgcact taacatctca catgtcacgc caccctcaag tagggcttcc agttctggga
7381 cggtctcgac cgtgcccaag gaagttttgg actcctggac gtctgcgttt aacacacaca
7441 gacagccgct cttcgcacac ctcagagtga ggggggagtc acgtgtttag
//