Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373135 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7485
LOCUS PQ373135 7549 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV22-45 nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PQ373135
VERSION PQ373135.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7549)
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 7549)
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..7549
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV22-45"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="08-Nov-2022"
/note="genotype: GII.17"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05726.1"
/translation="MKMASNDASVAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTQRPPRPPTPELVKKIPPPPPNCEDEPKIAYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGEAFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSNLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPSVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRREERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIVINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..999
/gene="ORF1"
/product="p48"
mat_peptide 1000..2097
/gene="ORF1"
/product="NTPase"
mat_peptide 2098..2634
/gene="ORF1"
/product="p22"
mat_peptide 2635..3033
/gene="ORF1"
/product="VPg"
mat_peptide 3034..3576
/gene="ORF1"
/product="Pro"
mat_peptide 3577..5106
/gene="ORF1"
/product="RdRp"
gene 5090..6706
/gene="ORF2"
CDS 5090..6706
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XHF05727.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRAHEAVISTYSPRFVPKLGSVNFKSNDNDFQLQPTRFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLLFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6706..7485
/gene="ORF3"
CDS 6706..7485
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XHF05728.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLRAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSAPQSKPAKPRSLGSSSSSSSVYSMSTQST
SLTSGSSSNASSAPTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgtc gccgttgctg gaaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaaaca gccgcccccg ggagaaacaa aacaaacaca aagaccacca
181 aggccaccga caccggaatt ggtgaagaag atacccccac ccccccccaa ttgcgaggat
241 gaaccaaaga tagcgtataa ggtgggagaa ggtgtgtctg ggttgcccga cttgacaacc
301 gtggcacaac ctgacgcaca gaacacagcc tacagtgtcc ccccacttag ccagagagag
361 gtcggcgaag ctaaagaacc gttgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccattatg ggctgtatgt tgagcggggg catgtactgg gagtgcacaa accacccgcc
481 gcaataagcc ttgccaaaat tgaattaaca ccgctgtctc tctactggag agtggtttac
541 actccccaat atttgatagc tccagagacc cttaagaatt taaatggaga ggctttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttttaga ccttaacgac
661 tcctggctta gcagaagaat gatccaaaga acaactggat tcttcagacc gtatcaggac
721 tggaacagaa aacccttgcc aaccatggat gaaccaaaaa tcaagaaggc cgcgaatgct
781 gttctgtgtg ctctctcctc actcttcact aggcccatca aagatgtcat tggaaagctc
841 aaaccactga acattatgaa catactggca acttgtgatt ggacctttgc gggcatagtg
901 gaatccatga tccttcttgc tgagctcttt ggggtgttct ggacgccccc agatgtgtct
961 gcaatgattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtaat gggaggaata ggtttggtgt taggattcac caaggaaaag
1081 atcggcaaga tgctttcatc agctgcgacc acactcaggg cctgtaagga tctaggatct
1141 tatgggttgg agatactcaa actggtcatg aagtggttct tccccaagaa ggaggaggcc
1201 aacgagttag ccatggtgag ggccattgag gatgcagttc tggatttgga ggcaatagaa
1261 aacaaccaca tgaccactct ccttaaggac aaagacagcc tggccacata catgaggact
1321 cttgacttgg aagaagaaaa agcaaggaaa ctgtcatcca aatcggcgtc acctgacatc
1381 gtgggcacag taaacgcatt attggcaagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacagagg cctgttgttg taatgatatc aggtaggcca
1501 ggtataggaa agacccatct ggccagagag ctagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact gatacctaga aatggcgtcg accattggga cgcctacaaa
1621 ggagagcggg tggttctgtg ggatgactat ggcatgagca accccataca ggacgcactg
1681 aggctccaag aattggctga cacctgtccc ctgaccctaa attgtgacag gattgaaaac
1741 aaaggaaaag tgttcgacag tgacgccata attataacaa ccaacctcgc aaacccagca
1801 ccactggatt atgtcaactt tgaggcttgt tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acatcgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gaccagactt ctcacacatt aaacttcagc tggcaccaca gggaggcttt
1981 gataagaatg gcaacacccc acatggcaaa ggtgtggtta agtctctgac gattggttct
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg atgaatttga gctccaaggc
2101 tctaacttac caaccttcaa tttcgaccgt aacaaagtcg ccgccttcag acaattggca
2161 gctgaaaaca aatatggtct tatggacaca ctgagggtcg gcaaccaact gaaaagtgtc
2221 aaaaccctgg atgagctgaa gcaggctata aagaacatca ccatcaagaa gtgccagata
2281 gtgtacaatg gatgcaccta caccatggaa tctgatggga ggaacaaggt tgtggttgaa
2341 aaggttcaaa atgcaacagt ccaaaccaac aatgaacttg caggagcact ccaccacctg
2401 agatctgcaa ggataaggta ttatgttaaa tgtttccaag aagctattta ctctctactc
2461 caaattgctg gtgcagcctt cgtcaccaca cgcatcgtga ggcgcatgaa catctcaaac
2521 ctctggtcga agccatccgt cgaagagggt gatgagcctg aagacaaagg ggggtgcccc
2581 aagcccaggg atgaagatga cctcactatt gactctaaag acattaaagc agaagggaag
2641 aagggcaaga acaaatctgg ccggggcaag aaacacacag ctttctcatc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagggagg agaggaatgg caaatactca
2761 attgaagaat acctccagga cagggataga tactatgaag agcttgccat tgctaaggcc
2821 actgaggaag acttctgtga agaggaggaa atcaaaattc gccagaggat cttccggccc
2881 accaggaagc aacggagaga ggaaagagcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga acccagatga cttcaagcca aaaggaaaat tgtgggctga tgacaacaga
3001 agtgtggact acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gtacaggatg gggattctgg gtctccccaa gtctctttat aacttcaaca
3121 catgtcatac caaaaggaat cactgaggcc tttggagttc ccattaacca aattcaaatt
3181 cacaaatctg gagagttttg ccgcttgcgg tttccaaaac caatcaggcc agacgtgagt
3241 ggaatgatct tggaagaggg tgcccctgaa ggcactgttg tgtccattct catcaagagg
3301 acaacagggg aactgatgcc tctcgcagtt agaatgggaa ctcatgccac aatgaaaatc
3361 caaggtagaa cggtgggtgg tcaaatgggc atgcttctca ctggctcaaa cgctaaaagc
3421 atggacctag gcacaacacc aggtgactgt gggtgcccat acatatacaa aaggggcaat
3481 gacttcgtgg tcattggggt gcacactgca gcagcccgtg gaggcaacac ggtcatatgt
3541 gccacacagg ggagtgaagg cgaagccacc ctcgaaggag gtgacaacaa gggcacctat
3601 tgtggagccc ccatcttggg acctggcaac gcaccaaaat taagcacaaa aacaaaattc
3661 tggagatctt ctaacgcgcc gcttcctcca ggtacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg aggcccatct ctacaacagg ttatgagaga ccaacttaaa
3781 ccttttacag agcccagagg gaagccacca aaaccaagtg tcctagaatc agcaaagaag
3841 accatcatta atgttctgga gcaaaccatt gacccccctg aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcatcacgt ccggaagaat
3961 gactattgga gtggtgaatc cttcacgggg aaacttgcag accaggcctc aaaagcaaac
4021 cttatgtatg aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaag atcaagaaaa gactcctgtg gggctctgac
4141 ctatccacca tgattcgatg cgccagggca tttggtggcc tcatggatga gctcaaagca
4201 aattgtatca cactccctgt cagagttggt atgaacatga atgaagatgg tcccataata
4261 tttgaaaagc actccaggta caggtaccac tatgatgctg attactcccg ctgggattcc
4321 acacaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagttgg cacaaatagt ggcagaggac ctgctatcac caagtgtggt tgatgtgggc
4441 gatttcaaaa ttgttatcaa tgaaggccta ccatctggcg tgccttgcac ttcacaatgg
4501 aattctattg cccactggtt actcaccctg tgtgccctgt ctgaagtaac aggactaggc
4561 cctgacatca tacaagccaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattagaccc agagaaattg actgcaaaac tcaaagaata tggtcttaaa
4681 cccacccggc ctgacaagac tgaggggcca ctggtaatta gtgaggacct gaatgggttg
4741 actttcctcc gccgaacagt cacccgcgat ccagctggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca aggggaccca accatgaaga ccccagtgag
4861 actatgatac cacacgcaca gagacctgtg cagctcatgg cactgctagg agagtcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaagctgg tcatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcaggtggat gaggttctca
5041 gatctaagca catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc
5101 gtcgaatgac gccgctccat ctaatgatgg tgctgctggt ctcgtaccag agggcaataa
5161 cgagaccctt cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggcca
5221 aaacaatata attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt
5281 cacagtgtca cccagaaact ctcctggaga aattttacta aacctagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtacgctg gtggagttga
5401 agtccaggtt ctcctggcag ggaacgcgtt cactgccggg aagatcctct tcgccgctgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag attacaatgc tcccacatat
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ttacctgatg ttaggaatac
5581 attcttccac tataacaacc agcccaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccccttaga tctaatggct caggtgatga tgttttcact gtttcttgca gggttttgac
5701 tagacctact cctgattttg agttcactta tctagtgcca ccctctgttg aatctaaaac
5761 taagcccttt tccttaccca ttttaaccct ttctgagctc acaaattcga ggtttccggt
5821 ccccattgat tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca cttgacggtg agctacaagg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcaga ggacgggtga cagcagaaac tgacaaccct gataagtggc acatgcaact
6001 gcaaaacctc aatggcacaa cgtatgaccc aactgatgat gtgccagccc cactgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggcaagccaa agaaatgtgg gtaacgatgc
6121 gcccggctca accagggctc atgaggcggt gatttcaacc tacagcccca gatttgtccc
6181 caaattaggc tctgtcaatt ttaaaagtaa tgacaatgat ttccaattgc agccaacaag
6241 attcacacca gtgggcatta atgatgatgg cgaccacccg ttcagacaat gggaactgcc
6301 agactattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggtgaa caattattac tcttcagatc ttccgtgcca tgttcaggag gttacaacca
6421 aggtattata gattgtctta tcccccaaga atggatccaa cacttctacc aggaatcagc
6481 accttctcag tcagacgtgg ccctgatcag gtacgtcaac cccgacacgg gtcgcacact
6541 gtttgaggca aaattgcaca gatctggtta tatcactgtg gctcactctg gagactatcc
6601 tcttgttgtc ccggctaatg gatactttag atttgattct tgggtaaacc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggagctttc
6721 attgcaggat tggcgggtga catgctcacg tcatccgtgg gctccctggt gaacgcaggg
6781 gcaaacgcca ttaaccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 ttccaacatg ataaagagat gctccgagcg caggtaaatg caaccaagca gctgcaatct
6901 gaaatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc cactgatgca
6961 gcgagggggg ccatcggtgc acccatgaca aaggtgcttg actggtctgg cactcgatat
7021 tgggctccca attccacaaa gacaactggt tattcggggc aattcacctc ttcacctgtg
7081 cacatgccta gcccgagtgc tccacaatca aaacccgcaa agcccagatc tctaggttct
7141 tcttcttctt ctagtagtgt ttatagtatg tctacccaat caacttctct aacatctggc
7201 tcttctagta atgcttcttc tgctcctaca aaattgacaa atttaagctc tggctcctct
7261 caaaacagga cagcagagtg ggtgaaccaa cagagaagtc tcagcccttt catgagtggc
7321 gcactcaata tctcacatgt cacgccgcct tcaagtaggg cctccagttc tgggacggtc
7381 tcaaccgtgc ccaaggaagt tttggactcc tggacatctg cattcaacac acgcagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt
7501 ggctataata tgatttcttt aaaatttaaa tttggctaat ttgtatttc
//