Typing tool
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Typing tool
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Complete norovirus genomes
| OP205532 | GII.17 | |
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| GII.P17 |
ORF1: 1..5108
ORF2: 5089..6705
ORF3: 6705..7484
LOCUS OP205532 7484 bp RNA linear VRL 21-JUN-2023
DEFINITION Norovirus GII isolate RIVM-NOV-2015-0108_R02-06 nonstructural
polyprotein (ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3)
genes, complete cds.
ACCESSION OP205532
VERSION OP205532.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norwalk virus.
REFERENCE 1 (bases 1 to 7484)
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JOURNAL Unpublished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 7484)
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..7484
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NOV-2015-0108_R02-06"
/isolation_source="Human feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/country="Netherlands"
/collection_date="2015-01-31"
/note="genotype: GII.17[P17]"
gene <1..5108
/gene="ORF1"
CDS <1..5108
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="UUV60897.1"
/translation="KMASNDASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGARP
KQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPKVVYKVGEGVSGLPNLTTVAQ
PDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGYVLGVHKPPAA
ISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLSGETFPYTAFDNNCYAFCCWVLELN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDII
GKLRPLNILNVLATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHVTILLKDKDSLATYMRTLDLEEEKARKL
STKSASPDIVGTINSLLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHYRPDFTHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAVNKYGLMDTLRVGNQLKSVK
TLDELKQAIKNISIKKCQIVYNGCTYTMESDGRSKVVVEKAQNATVQTNNELVGALHH
LRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDKG
GCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP
EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDFVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTTK
LREYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTR
GPNHGDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPR
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..6705
/gene="ORF2"
CDS 5089..6705
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="UUV60898.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDHRDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGV
ASQRNVGNDAPGSTRAHEAVISTYSPQFVPKLGSVNFRSNDNDFQLQPTKFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIVDCL
IPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6705..7484
/gene="ORF3"
CDS 6705..7484
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="UUV60899.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAISQKIDFENNRQLQSA
SFQHDKEMLQAQVKATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPNAPQSKPAKPRSLAPSSSSSSVYSMSTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKGVLDSWTPAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 tgaagatggc gtcgaatgac gcttccgctg ccgttgctgg caaaaacaac aacaacgaca
61 aggagaaatc ttcaagtgac agcttgtttt ctaacatgac tgttactttt aagaaagccc
121 tcggggcgcg gcctaaacaa ccgcccccgg gagaaacaaa acaaatacaa aaaccaccaa
181 gaccaccgac accggaattg gtgaagagaa tacccccacc cccacccaat ggcgaggatg
241 aaccaaaggt agtgtataag gtgggagagg gtgtgtctgg gctgcccaac ctaacaactg
301 tggcacagcc tgacgcacaa aacacagctt atagtgttcc cccacttagc cagagagaag
361 tcggcgaagc taaagaaccg ctgcctggct ccattctgga aatgtgggat ggtgagatct
421 accactacgg gctgtatgtt gagcgggggt atgtactcgg agtgcacaaa ccacctgctg
481 caataagcct tgccaaaatt gaattaacac cgctgtctct ctactggaga gtggtctaca
541 ctccccagta tttgatagct ccagaaactc ttaagaattt gagtggagag acttttccat
601 atacggcctt tgacaacaat tgttatgcct tctgttgttg ggtcctagaa cttaacgact
661 cctggcttag caggagaatg atccaaagaa caactggatt cttcagaccg tatcaggatt
721 ggaacagaaa acccttacca accatggatg aaccgaaaat caagaaggcc gcgaatgctg
781 ttctgtgtgc tctctcctca ctctttacta gacccattaa ggacatcatt ggaaagctta
841 gaccactgaa cattcttaat gtactggcaa cttgtgactg gacttttgca ggcatagtgg
901 aatccatgat ccttcttgct gaactctttg gggtgttctg gaccccccca gatgtgtctg
961 cgatgattgc tcccttactc ggtgattacg agatgcaagg ccccgaagac ctggccgtgg
1021 aacttgtgcc cgtggtaatg ggaggaatag gtttggtgtt aggattcacc aaggaaaaga
1081 tcggcaagat gctttcatca gctgcgacca cacttagggc ctgcaaggat ctaggatctt
1141 atggattgga gatactcaaa ttggtcatga agtggttctt ccccaagaag gaggaggcta
1201 atgaactagc catggtgagg gccattgagg atgcagtcct ggatttggag gcaatagaaa
1261 acaaccacgt gaccatcctt ctcaaggata aagatagcct ggccacatac atgaggactc
1321 ttgacttgga agaagagaaa gcaaggaaac tgtcaaccaa atcggcgtca cctgacatcg
1381 tgggtacaat aaactcatta ttggcaagga tagcagccgc caggtcactg gtccacaagg
1441 ctaaggagga gctctcgagc aggcagagac ctgttgttgt aatgatatca ggtagaccag
1501 gtataggaaa gacccacctg gccagagagc tagccaagaa agttgcgtca acactgtcag
1561 gcgaccaaag gattggactg atacccagaa atggcgtcga ccattgggac gcctacaagg
1621 gagaaagggt ggttctgtgg gatgattatg gcatgagcaa ccctatacag gacgcactga
1681 ggctccaaga attggctgac acctgtcctc tgaccctaaa ttgtgacagg attgaaaaca
1741 aaggaaaagt gttcgacagt gatgccataa ttataacaac caaccttgca aacccagcac
1801 cactagacta tgtcaacttt gaggcctgct ctagacgcat agacttcttg gtgtacgcag
1861 acgcacctga catcgagaag gctaagcgtg acttccctgg ccaaccagat atgtggaaag
1921 accattacag accagacttt acacacatca aacttcagct ggcaccacag ggaggttttg
1981 acaaaaatgg caacacccca catggcaaag gtgtggtgaa gtctctgacg attggttctc
2041 tgatcgccag ggcttctggc ttgctccacg agagaatgga tgaattcgag ctccagggct
2101 ctgacctacc aaccttcaat tttgaccgca acaaagttgc cgcctttaga caattagcag
2161 ctgtaaacaa atatggtctt atggacacac tgagggtcgg caaccaactg aaaagtgtca
2221 agacactgga tgagctgaag caggccataa agaacatcag tatcaagaag tgccagatag
2281 tgtataatgg atgcacctat accatggaat ctgatgggag gagcaaggtt gtggttgaaa
2341 aggcacaaaa tgcaacagtt caaaccaaca atgaacttgt aggggcactc caccacctga
2401 gatctgcaag gataagatac tatgttaaat gtttccaaga agccatttac tctctactcc
2461 aaattgctgg tgcagccttc gtcacctcac gcatcgtgag gcgcatgaac atctcaaacc
2521 tctggtcgaa gccacccatc gaggagggtg atgagcctga agacaaagga ggatgcccca
2581 agcccaggga tgaagatgac ctcactattg actctagaga cattaaagtg gaagggaaga
2641 agggtaagaa caagtctggc cggggcaaga aacacacagc cttctcatcc aagggcctca
2701 gtgatgaaga gtacgatgag tacaagagga tcagagagga gaggaatggc aaatactcaa
2761 tagaggaata cctccaagat agggacagat actatgaaga gcttgccatt gctaaggcca
2821 ctgaggagga cttctgtgaa gaggaggaaa tcaaaatccg ccaaagaatc ttccgaccca
2881 ccaggaagca gcggaaagag gaaagggcca cgcttgggct tgtcacagga tcggaaatca
2941 gaaagaggaa tccagatgac tttaaaccaa aaggaaaatt gtgggctgat gacaacagga
3001 gcgtggatta caatgagagg atagattttg aggctcctcc gagtgtttgg tctaggatag
3061 tcaactttgg cacaggctgg gggttctggg tttctccaag tctctttata acttcaacac
3121 acgtcatacc aaaaggaatc actgaggctt ttggagtgcc cataaaccag atccaaattc
3181 acaaatctgg agaattttgc cgcttgcggt ttccaaagcc aatcagacca gacgtgagtg
3241 ggatgatctt ggaagagggt gcccctgaag gcactgttgt gtctattctc atcaaaagga
3301 caacagggga gctgatgcct cttgcagtca gaatggggac tcatgccaca atgaaaatcc
3361 aaggtagaac ggtgggtggt cagatgggta tgcttctcac tggctcaaat gctaaaagca
3421 tggatctagg cacaacgcca ggtgactgcg ggtgtccata catatacaaa aggggcaatg
3481 acttcgtggc cattggggtg cacactgcag cagcacgtgg aggcaacacg gtcatatgtg
3541 ccacacaggg aagtgaaggt gaagccactc ttgaaggagg tgacaacaag ggcacctatt
3601 gtggagcccc cattttggga cctggcaatg caccaaaatt gagcacaaaa acaaaattct
3661 ggagatcctc taacgcaccg cttcccccag gtacttatga accagcatac cttggtggga
3721 gagacccgcg cgtgaaggga ggcccatccc tgcaacaagt tatgagagac caactaaaac
3781 cttttacaga gcctagaggg aagccaccaa acccaaacgt cctagagtca gcaaagaaga
3841 ctatcatcaa tgttctggaa caaaccattg acccccctca aaagtggtca tatgcccaag
3901 cttgtgcatc cctcgacaag acaacttcca gtggataccc gcaccacgtc cggaagaatg
3961 actattggag tggtgaatcc ttcacaggga aacttgcaga ccaggcttca aaagcaaatc
4021 tcatgtatga ggaaggcaag cacatgcaac cagtttacac cgcagcactc aaagacgagc
4081 tcgtgaaaac tgacaaaatt tatggcaaga tcaagaaaag actcctgtgg ggttctgacc
4141 tctccaccat gattcgatgc gccagagcat ttggtggtct catggatgag ctcaaagcaa
4201 actgtattac actccctatt agagttggta tgaacatgaa tgaagacggt cccataatat
4261 ttgagaaaca ctccaggtac aggtaccact atgatgctga ttactcccgc tgggactcca
4321 cacaacagcg ggcagtgctg gaagcggcac ttgaaatcat ggtgagattt tctgctgagc
4381 cgcagctggc acaaatagtg gcagaggacc tgctgtcacc aagtgtggtt gatgtgggcg
4441 atttcaaaat cgctatcaac gaaggcctac catctggcgt gccttgcacc tcacaatgga
4501 attctattgc ccactggttg ctcaccctgt gtgccctttc tgaagtgaca ggactaggtc
4561 ctgacatcat acaagccaac tccatgtact ctttctatgg tgatgatgag attgtgagca
4621 cagacataaa actggaccca gagaaattga ctacaaagct cagagaatat ggtcttaaac
4681 ccactcggcc cgacaaaacc gaggggccgc tggtgattag tgaagacctg aatgggttga
4741 ctttcctccg ccgaacagtc acccgtgatc cagcaggttg gtttggaaag ttggaccaaa
4801 actccattct caggcagttg tactggacaa gaggacccaa ccatggagac cccagtgaga
4861 ccatgatacc acacgcacag agacctgtgc agctcatggc actactagga gaatcctccc
4921 tacatggacc ctcattttac agcaaggtta gcaaactggt 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 aacaacataa ttgacccctg gattagaaca aattttgtac aagcaccaaa tggagagttc
5281 acagtgtcac ccagaaactc ccctggagaa attttactaa acctagagtt gggccctgat
5341 ttgaaccctt atttggctca tttgtcaagg atgtacaatg ggtatgctgg tggggtggaa
5401 gttcaggttc tcctggcagg gaacgcgttc actgccggaa agatcctctt cgccgccgtc
5461 ccgccaaatt tcccagtgga attcttaagc ccagcccaga ttacaatgct cccacattta
5521 atagtagatg tcaggactct tgaaccaatt atgatcccac tccctgatgt taggaataca
5581 ttcttccatt ataacaacca gcctaacagc cgcatgagat tagtggctat gctctatacc
5641 ccccttagat ctaatggctc aggtgatgat gtctttactg tttcttgcag ggttttgact
5701 aggcccactc ctgattttga gtttacttat ttagtgccac cttctgttga atctaagact
5761 aagccttttt ccttacccat tttaaccctt tctgagctca caaattcgag gttcccagtc
5821 cccatcgatt cgcttttcac cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc
5881 aggtgcacac ttgatggaga gttacaaggc acaacccagt tgctcccatc tggcatctgt
5941 gcattcagag gacgggtgac agcagaaact gaccatcgtg acaagtggca catgcaactg
6001 caaaacctca atggcacaac atatgaccca actgatgatg tgccagcccc actgggtaca
6061 cctgacttca agggcgtcgt gtttggggta gcaagtcaaa gaaatgtggg taatgatgcg
6121 cctggctcga ccagggccca tgaggcggtg atttcaacct atagccccca gtttgtcccc
6181 aaattaggtt ctgtcaattt tagaagtaat gataatgact tccaattgca gcctacaaaa
6241 ttcacaccag tgggcatcaa tgacgatggt gaccacccgt tcagacaatg ggaactacca
6301 gactattcag gggtgcttac cttgaatatg aaccttgccc ccccggttgc tccaaatttc
6361 cctggtgaac aattattatt cttcagatct tttgtgccat gctcaggagg ttataaccaa
6421 ggcattgtag attgtcttat tccccaggaa tggatccaac acttctatca ggaatcagcg
6481 ccctcccaat cagacgtggc cctgatcagg tatgttaacc ccgacacggg gcgcacactg
6541 tttgaagcaa aattgcacag atctggttac attactgtgg ctcactctgg agactatcct
6601 cttgttgttc cggctaatgg atactttaga tttgattctt gggtaaatca gttttactca
6661 ctcgccccaa tgggaactgg gaatgggcga aggagggctc agtaatggct ggagctttca
6721 ttgcaggatt ggcaggcgac atgctcacgt catctgtggg ctccctggtg aatgcagggg
6781 caaacgccat cagccaaaag atagactttg aaaacaacag acaactccag tctgcttcct
6841 ttcagcatga taaagagatg ctccaagcgc aggtgaaggc aaccaagcag ctgcaatctg
6901 aaatgatagc cctaaaacag ggagttttgg ccgcaggcgg cttttccccc actgatgcag
6961 caaggggagc cattggtgcg cccatgacaa aggtgcttga ctggtctggc actcgatact
7021 gggcacccaa ttccacaaag acaactggtt attcgggaca attcacctct tcacctgtgc
7081 acatgcctag cccaaatgct ccacaatcaa aacctgcaaa gcctaggtct ctagctcctt
7141 cctcttcttc tagtagtgtc tatagtatgt ctactcaatc aactcattta acatctggct
7201 cttctagtaa tgcttcctct gcctctacaa aattgacaaa cttaagctct ggctcctctc
7261 aaaacaggac ggcagagtgg gtgaaccaac agagaagtct tagccctttc atgagtggcg
7321 cactcaatat ctcacatgtc acgccaccct caagtagggc ttccagttct gggacggtct
7381 cgaccgtgcc caagggagtt ttggactcct ggacgcctgc gtttaatacg cacagacagc
7441 cgctcttcgc acacctcaga gtgagggggg agtcacgtgt ttag
//