Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373129 | GII.17 | |
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| GII.P17 |
ORF1: 1..5108
ORF2: 5089..6705
ORF3: 6705..7484
LOCUS PQ373129 7544 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV22-08 nonstructural polyprotein
(ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ373129
VERSION PQ373129.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7544)
AUTHORS Chhabra,P., Wong,S., Niendorf,S., Lederer,I., Vennema,H., Faber,M.,
Nisavanh,A., Jacobsen,S., Williams,R., Colgan,A., Yandle,Z.,
Garvey,P., Al-Hello,H., Ambert-Balay,K., Barclay,L., de Graaf,M.,
Celma,C., Breuer,J., Vinje,J. and Douglas,A.
TITLE Increased circulation of GII.17 noroviruses, six European countries
and the United States, 2023 to 2024
JOURNAL Euro Surveill 29 (39) (2024)
REMARK DOI: 10.2807/1560-7917.ES.2024.29.39.2400625
REFERENCE 2 (bases 1 to 7544)
AUTHORS Vennema,H., Cremer,J., Jaarsma,R., van der Veer,B., Schmitz,D.,
Zwagemaker,F. and Kroneman,A.
TITLE Direct Submission
JOURNAL Submitted (25-SEP-2024) Centre for Infectious Disease Control,
National Institute for Public Health and the Environment, Antonie
Van Leeuwenhoeklaan, Bilthoven, Utrecht 3721 MA, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: Jovian v. 2.0.1
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7544
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV22-08"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="23-Feb-2022"
/note="genotype: GII.17"
gene <1..5108
/gene="ORF1"
CDS <1..5108
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="XHF05708.1"
/translation="KMASNDASVAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGARS
KQPPPGETKQTQRPPRPPTPELVKKIPPPPPNGEDEPKIAYKVGEGVSGLPDLTTVAQ
PDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVDRGHVLGVHKPQAE
IGLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGEAFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDVI
GKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKL
SSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGSDLPTFNFDRNKIAAFRQLAAENKYGLVDTLRVGNQLKSVK
TLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALHH
LRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDKG
GCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRREERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP
EGTVVTILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDELKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIVINEGLPSGVP
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..6705
/gene="ORF2"
CDS 5089..6705
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XHF05709.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRAHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
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="XHF05710.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAISQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALRQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHVPSPSAPQPKPAKPRSLGSSSPSSSVYSMSTQST
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgtcg ccgttgctgg caaaaacaac aacaacgaca
61 aggaaaaatc ttcaagtgac agcttgtttt ctaacatgac tgttactttt aagaaagccc
121 tcggggcgcg gtctaaacag ccgcccccgg gagaaacaaa acaaacacaa agaccaccaa
181 ggccaccgac accggaattg gtgaagaaga tacccccacc cccccccaat ggcgaggatg
241 aaccaaagat agcgtataag gtgggagaag gtgtgtctgg gctgcccgac ttgacaaccg
301 tggcacaacc cgacgcacag aacacagcct acagtgtccc cccacttagc cagagagagg
361 tcggcgaagc taaagaaccg ttgcctggct ccattctgga aatgtgggat ggtgagatct
421 accactatgg gctgtatgtt gatcgggggc atgtactggg agtgcacaaa ccacaagccg
481 aaataggcct tgccaaaatt gaattaacac cgctgtctct ctactggaga gtggtttaca
541 ctccccaata tttgatagct ccagagaccc ttaagaattt aaatggagag gctttcccat
601 acacggcctt tgacaacaac tgttatgcct tctgttgttg ggttttagac ctcaacgact
661 cctggcttag cagaagaatg atccaaagaa caactggatt cttcagaccg tatcaggact
721 ggaacagaaa acccttgcca accatggatg aaccaaaaat caagaaggcc gcgaatgctg
781 ttctgtgtgc tctctcctca ctcttcacta ggcccatcaa agatgtcatt ggaaagctca
841 aaccactgaa cattatgaac atactggcaa cttgtgattg gacttttgcg ggcatagtgg
901 aatccatgat ccttcttgct gagctctttg gggtgttctg gacgccccca gatgtgtctg
961 caatgattgc tcccttactc ggtgactacg agatgcaagg ccccgaagac ctggccgtgg
1021 aacttgtgcc cgtggtaatg ggaggaatag gtttggtgtt aggattcacc aaggaaaaga
1081 tcggcaagat gctttcatca gctgcgacca cactcagggc ctgtaaggat ctaggatctt
1141 atgggttgga gatactcaaa ctggtcatga agtggttctt ccccaagaag gaggaggcca
1201 acgagttagc catggtgagg gccattgagg atgcagttct ggatttggag gcaatagaaa
1261 acaaccacat gaccactctc cttaaggaca aagacagcct ggccacatac atgaggactc
1321 ttgacttgga agaagaaaaa gcaaggaaac tgtcatccaa atcggcgtca cctgacatcg
1381 tgggcacagt aaacgcatta ttggcaagga tagcagccgc caggtcactg gtccacaagg
1441 ctaaggagga gctctcgagc agacagaggc ctgttgttgt aatgatatca ggtaggccag
1501 gtataggaaa gacccatctg gccagagagc tagccaagaa ggttgcgtca acactgtcgg
1561 gcgaccaaag gattggactg atacctagaa atggcgtcga ccattgggac gcctacaaag
1621 gggagcgggt ggttctgtgg gatgactatg gcatgagcaa ccctatacag gacgcactga
1681 ggctccaaga attggctgac acctgtcctc tgaccctaaa ttgtgacagg attgaaaaca
1741 aaggaaaagt gttcgacagt gacgccataa ttataacaac caacctcgca aacccagcac
1801 cactggatta tgtcaacttt gaggcttgtt ctagacgcat agacttcttg gtgtatgcag
1861 acgcacctga catcgagaag gctaagcgtg acttccctgg ccaaccagat atgtggaaag
1921 accattacag atcagacttc tcacacatta aacttcagct ggcaccacag ggaggctttg
1981 ataagaatgg caacacccca catggcaaag gtgtggttaa gtctctgacg attggttctc
2041 tgatcgccag ggcttctggc ttgctccatg agagaatgga tgaatttgag ctccagggct
2101 ctgacttacc aaccttcaat ttcgaccgta acaaaatcgc cgccttcaga caattggcag
2161 ctgaaaacaa atatggtctt gtggacacac tgagggtcgg caaccaactg aaaagtgtca
2221 aaaccctgga tgagctgaag caggctataa agaacatcac catcaagaag tgccagatag
2281 tgtataatgg atgcacctac accatggaat ctgatgggag gaacaaggtt gtggttgaaa
2341 aggttcaaaa tgcaacagtc caaaccaaca atgaacttgc aggagcactc caccacctga
2401 gatctgcaag gataaggtat tatgttaaat gtttccaaga agctatttac tctctactcc
2461 aaattgctgg tgcagccttc gtcaccacac gcatcgtgag gcgcatgaac atctcaaacc
2521 tctggtcgaa gccacccgtc gaagagggtg atgagcctga agacaaaggg gggtgcccca
2581 agcccaggga tgaagatgac ctcactattg actctaaaga cattaaagca gaagggaaga
2641 agggcaagaa caaatctggc cggggcaaga aacacacagc tttttcatcc aagggcctca
2701 gtgatgaaga gtacgatgag tacaagagaa tcagggagga gaggaatggc aaatactcaa
2761 ttgaagaata cctccaggac agggatagat actatgaaga gcttgccatt gctaaggcca
2821 ctgaggaaga cttctgtgaa gaggaggaaa tcaaaattcg ccagagaatc ttccggccca
2881 ccaggaagca acggagagag gaaagagcca cgcttgggct tgtcacagga tcggaaatca
2941 gaaagaggaa cccagatgac tttaagccaa aaggaaaatt gtgggctgat gacaacagaa
3001 gtgtggacta caatgagagg atagattttg aggctccccc gagtgtttgg tctagaatag
3061 tcaactttgg tacaggatgg ggattctggg tctccccaag tctctttata acttcaacac
3121 atgtcatacc aaaaggaatc actgaggcct ttggagttcc cattaaccaa attcaaattc
3181 acaaatctgg agagttttgc cgcttgcggt ttccaaaacc aatcaggcca gacgtgagtg
3241 gaatgatctt ggaagagggt gcccctgaag gcactgttgt gaccattctc atcaagagga
3301 caacagggga actgatgcct ctcgcagtta gaatgggaac tcatgccaca atgaaaatcc
3361 aaggtagaac ggtgggtggt caaatgggca tgcttctcac tggctcaaac gctaaaagca
3421 tggacctagg cacaacacca ggtgactgtg ggtgcccata catatacaaa aggggcaatg
3481 acttcgtggt cattggggtg cacactgcag cagcccgtgg aggcaacacg gtcatatgtg
3541 ccacacaggg aagtgaaggc gaagccaccc tcgaaggagg tgacaacaag ggcacctatt
3601 gtggagcccc catcttggga cctggcaacg caccaaaatt gagcacaaaa acaaaattct
3661 ggaggtcttc taacgcgccg cttcctccag gtacctatga accagcatac cttggtggaa
3721 aagacccgcg tgtgaaggga ggcccatctc tacaacaggt tatgagagac caacttaaac
3781 cttttacaga gcccagaggg aagccaccaa aaccaagtgt cctagaatca gcaaagaaga
3841 ccatcattaa tgttctggag caaaccattg acccccctga aaagtggtca tatgcccaag
3901 cttgtgcatc cctcgacaag acaacctcca gtgggtaccc gcatcacgtc cggaagaacg
3961 actattggag tggtgaatcc ttcacgggga aacttgcaga ccaggcctca aaagcaaacc
4021 ttatgtatga ggaaggtaag catatgcaac cagtttacac cgcagcactc aaagacgagc
4081 tcgtgaaaac tgacaaaatt tatggcaaga tcaagaaaag actcctgtgg ggctctgacc
4141 tatccaccat gattcgatgc gccagggcat ttggtggcct catggatgag ctcaaagcaa
4201 attgtatcac actccctgtc agagttggta tgaacatgaa tgaagatggt cccataatat
4261 ttgaaaagca ctccaggtac aggtaccact atgatgctga ttactcccgc tgggattcca
4321 cacaacagcg ggcagtgctg gaagcggcac ttgaaatcat ggtgagattt tctgctgagc
4381 cacagttggc acaaatagtg gcagaggacc tgctatcacc aagtgtggtt gatgtgggcg
4441 atttcaaaat agttatcaat gaaggcctac catctggcgt gccttgcact tcacaatgga
4501 attctattgc ccactggtta ctcaccctgt gtgccctgtc tgaagtaaca ggactaggcc
4561 ctgacatcat acaagccaac tccatgtact ctttctatgg tgatgatgag attgtgagca
4621 cagatataaa attagaccca gagaaattga ctgcaaaact caaagaatat ggtcttaaac
4681 ccacccggcc tgacaagact gaggggccac tggtaattag tgaggacctg aatgggttga
4741 ctttcctccg ccgaacagtc acccgcgatc cagcgggttg gtttggaaag ttggaccaaa
4801 actccatcct caggcagctg tactggacaa ggggacccaa ccatgaagac cccagtgaga
4861 ctatgatacc acacgcacag agacctgtgc agctcatggc actgctagga gagtcctccc
4921 tacatggacc ctcattttac agcaaggtta gcaagctggt catatctgaa cttaaagagg
4981 gaggaatgga tttttatgtg cccagacaag agtcaatgtt caggtggatg aggttctcag
5041 atctaagcac atgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg
5101 tcgaatgacg ccgctccatc taatgatggt gctgctggtc tcgtaccaga gggcaataac
5161 gagacccttc ccctagaacc agttgcgggc gcagctatag ccgcacccgt cactggccaa
5221 aacaatataa ttgacccctg gattagaaca aattttgtgc aagcaccaaa tggagagttc
5281 acagtgtcac ccagaaactc tcctggagaa attttactaa acctagagtt gggccctgat
5341 ttgaaccctt atttggctca tttgtcaagg atgtacaatg ggtacgctgg tggagttgaa
5401 gtccaggttc tcctggcagg gaacgcgttc actgccggga agatcctctt cgccgctgtc
5461 ccgccaaact tcccagtgga attcttaagc ccagcccaga ttacaatgct cccacatata
5521 atagtagatg ttaggactct tgaaccaatt atgatcccat tacctgatgt taggaacaca
5581 tttttccact ataacaatca gcccaacagc cgcatgagat tagtggctat gctctatacc
5641 ccccttagat ctaatggctc aggtgatgat gtttttactg tttcttgcag ggttttgact
5701 aggcctactc ctgattttga gttcacttat ctagtgccac cctctgttga atctaagacc
5761 aagccctttt ccttacccat tttaaccctt tctgagctca caaattcgag gttcccggtc
5821 cccattgatt cgcttttcac cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc
5881 aggtgcacac ttgacggtga gctacaaggc acaacccagt tgctcccatc tggcatctgt
5941 gcgttcagag gacgggtgac agcagaaact gacaatcctg ataagtggca catgcaactg
6001 caaaacctca atggcacaac gtatgaccca actgatgatg tgccagcccc actgggtaca
6061 cctgacttca agggcgtcgt gtttgggatg gcaagccaaa gaaatgtggg taatgatgcg
6121 cccggctcaa ccagggctca tgaggcggtg atttcaacct acagccccag atttgttccc
6181 aaattaggct ctgtcaattt taaaagtaat gacgatgatt tccaattgca gccaacaaga
6241 ttcacaccag tgggcattaa tgatgatggc gaccacccgt tcagacaatg ggaactgcca
6301 gactattcag gggtgcttac cttgaatatg aaccttgccc ccccggttgc tccaaatttc
6361 cctggtgaac aattattatt cttcagatct tccgtgccat gttcaggagg ttacaaccaa
6421 ggtattatag attgtcttat cccccaagaa tggatccaac acttctatca ggaatcagca
6481 ccttctcagt cagacgtggc cctgatcagg tacgtcaacc ccgacacggg tcgcacactg
6541 tttgaggcaa aattgcacag atctggctat atcactgtgg ctcactctgg agactatcct
6601 cttgttgttc cggctaatgg atactttaga tttgattctt gggtaaatca gttttactca
6661 ctcgccccaa tgggaactgg gaatgggcga aggagggctc agtgatggct ggagctttca
6721 ttgcaggatt ggcaggtgac atgctcacgt catccgtggg ctccctggtg aacgcagggg
6781 caaatgccat cagccaaaag atagactttg aaaacaacaa acaactccag tctgcttcct
6841 ttcaacatga taaagagatg ctccaagcgc aggtaaatgc aaccaagcag ctgcaatctg
6901 agatgatagc cctaagacag ggggttttgg ccgcaggcgg cttttccccc actgatgcag
6961 cgaggggggc catcggtgcg cccatgacaa aggtgcttga ctggtctggc actcgatatt
7021 gggctcccaa ttccacaaag acaactggtt attcggggca attcacctct tcacctgtgc
7081 acgtgcccag cccgagtgct ccacaaccaa aacccgcaaa gcccagatct ctaggttctt
7141 cttctccttc tagtagtgtt tatagtatgt ctacccaatc aacttctcta acatctggct
7201 cttctagtaa tgcttcttct gcttctacaa aattgacaaa tttaagctct ggctcctctc
7261 aaaacaggac agcagagtgg gtgaaccaac agagaagtct cagccctttc atgagtggcg
7321 cactcaatat ctcacatgtc acgccacctt caagtagggc ctccagttct gggacggtct
7381 caaccgtgcc caaggaagtt ttggactcct ggacatctgc attcaacaca cgcagacagc
7441 cgctcttcgc acacctcaga gtgagggggg agtcacgtgt ttagtgaaaa gaaataattg
7501 gctataatat gatttctttt ttaaatttgg ttaatttgta tctt
//