Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373141 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7485
LOCUS PQ373141 7548 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV23-50 nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PQ373141
VERSION PQ373141.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7548)
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 7548)
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..7548
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV23-50"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="13-Dec-2023"
/note="genotype: GII.17"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05744.1"
/translation="MKMASNDASVAVAGKNNNNDNVKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTLRPPRPPTPELVKKIPPPPPNGEDEPKVTYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMVQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDALATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKSGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGPNLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALH
HLRSARIRYYVKCFQEAIYSILQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVAIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGV
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="XHF05745.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNQPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSEVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
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="XHF05746.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATRQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTRVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSVPQSKSAKPKSLGSSSSSSSVYSVPTQLT
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgtt gccgttgctg gcaaaaacaa caacaacgac
61 aatgtaaaat cttcaagtga cagcctgttt tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaagca gccgcccccg ggagaaacaa aacaaacact aagaccacca
181 aggccgccga caccggaatt ggtgaagaag atacccccac ccccccccaa tggcgaggat
241 gaaccaaagg taacgtataa ggtgggagaa ggtgtgtctg ggctgcccga cttaacaacc
301 gtggcacaac ctgacgcaca gaacacagcc tatagtgtcc ccccacttag ccagagagag
361 gtcggcgaag ctaaagaacc gttgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg ggctgtacgt tgagcggggg catgtgctgg gagtgcacaa accacctgct
481 gcaataagcc ttgctaaaat tgagttaaca ccgctgtctc tctactggag agtggtctac
541 actccccagt acttgatagc tccagagacc ctcaagaatt taaatggaga gactttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttctaga cctcaacgac
661 tcctggctta gcagaagaat ggtccaaaga acaaccgggt tcttcagacc gtatcaggac
721 tggaacagaa aacccttgcc aaccatggat gaaccaaaaa tcaagaaggc cgcgaatgct
781 gttctgtgtg ctctctcctc actcttcact aggcccatca aagatgtcat tggaaagctt
841 aaaccactaa acattatgaa catactggca acttgtgatt ggacttttgc gggcatagtg
901 gaatccatga tccttcttgc tgaactcttt ggggtgttct ggacgccccc agatgtgtct
961 gcaataattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtaat gggaggaata ggtttggtgt taggattcac caaggaaaag
1081 atcggcaaga tgctttcatc agctgcaacc acactcaggg cctgtaagga tctaggatct
1141 tatgggttgg agatactcaa actggtcatg aagtggttct tccccaagaa ggaggaggcc
1201 aacgagttag ccatggtgag ggccattgag gatgcagttc tggatttgga ggcaatagaa
1261 aacaaccaca tgaccactct ccttaaggac aaagacgccc tggccacata catgaggact
1321 cttgacttgg aagaagaaaa agcaaggaaa ctatcttcca aatcggcgtc acctgacatc
1381 gtgggcacag taaacgcatt attggcaaga atagcagccg ccaggtcact agtccacaag
1441 gctaaggagg agctctcgag cagacagaga cctgttgttg taatgatatc aggtaggcca
1501 ggtataggaa agacccatct ggccagagag ctagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact gatacccaga aatggcgtcg accattggga cgcctacaaa
1621 ggagagcggg tggttctgtg ggatgactat ggcatgagca accctataca ggacgcactg
1681 aggctccaag aattggctga cacctgtcct ctgaccctaa attgtgacag aattgaaaac
1741 aaaggaaaag tgttcgacag tgacgccata atcataacaa ccaaccttgc aaacccagca
1801 ccattggatt atgtcaattt tgaggcttgt tccagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acatcgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gaccagactt ctcacacatt aaacttcagc tcgcaccaca gggaggcttt
1981 gataagagtg gcaacacccc acatggcaaa ggtgtggtta agtctctgac gattggttct
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg atgaattcga gctccaaggc
2101 cccaacttac caaccttcaa tttcgaccgt aacaaagtcg ccgccttcag acaattggcg
2161 gctgaaaaca aatacggtct tatggacaca ctgagggtcg gcaaccaact gaaaagtgtc
2221 aaaaccctgg atgagctgaa gcaggctata aagaacatca ccatcaagaa gtgccagata
2281 gtgtacaatg gatgcaccta caccatggaa tctgatggga ggaacaaggt tgtggttgag
2341 aaggttcaaa atgcaacagt ccaaaccaac aatgaacttg caggagcact ccaccacctg
2401 agatctgcaa gaataaggta ttatgtcaaa tgtttccaag aagctattta ctctatactc
2461 caaattgctg gtgcagcctt cgtcaccaca cgcatcgtga ggcgcatgaa catctcaaac
2521 ctctggtcga agccacccgt cgaagagggt gatgagcctg aagacaaagg ggggtgcccc
2581 aagcccaggg atgaagatga cctcactatt gattccaaag acattaaaac agaaggtaag
2641 aagggcaaga acaaatctgg ccggggcaag aaacacacag ctttctcatc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagggagg agagaaatgg caagtactca
2761 atagaagaat acctccagga cagggataga tactatgaag agcttgccat tgctaaggcc
2821 actgaggaag acttctgtga agaggaggaa atcaaaattc gccagagaat cttccgaccc
2881 accaggaagc agcggaaaga ggaaagagcc acgcttgggc tcgtcacagg atcggaaatc
2941 agaaagagga acccagatga ttttaagcca aaaggaaaat tgtgggctga tgacaacagg
3001 agtgtggact acaatgagag gatagatttt gaggctcccc caagtgtttg gtctaggata
3061 gtcaactttg gtacagggtg gggattctgg gtctccccaa gtctctttat aacttcaaca
3121 catgtcatac caaaaggaat cactgaggcc tttggagttc ccattaacca aattcaaatt
3181 cacaaatctg gagagttttg tcgcttgcgg tttccaaaac caatcaggcc agacgtgagt
3241 ggaatgatct tggaagaggg tgcccctgaa ggcactgttg tttccattct catcaagagg
3301 acgacagggg aactgatgcc tctcgcagtt agaatgggaa ctcatgccac aatgaaaatc
3361 caaggtagaa cggtgggcgg tcaaatgggc atgcttctca ctggctcaaa cgccaaaagc
3421 atggacctag gcacaacacc aggtgactgt gggtgcccat acatatacaa aaggggcaat
3481 gacttcgtgg ccattggggt gcacactgca gcagcccgtg gaggtaacac ggtcatatgt
3541 gccacacagg ggagtgaagg cgaagccacc ctcgaaggag gtgacaacaa gggcacctat
3601 tgtggagccc ccatcttggg acctggcaac gcaccaaaat tgagcacaaa aacaaaattc
3661 tggagatctt ctaacgcgcc gctcccgcca ggcacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg aggcccatct ctacaacagg ttatgagaga ccaactcaaa
3781 ccttttacag agcccagagg gaagccacca aaaccaagtg tcctagaatc agcaaagaag
3841 accatcatta atgttctgga acaaaccatt gacccccctg aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcatcacgt ccggaagaat
3961 gactactgga gcggtgaatc cttcacgggg aaacttgcag accaggcctc aaaagcaaat
4021 ctcatgtatg aggaaggtaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaag atcaagaaaa gactcctgtg gggctctgac
4141 ctatccacca tgattcgatg tgccagggcg tttggtggcc ttatggatga gctcaaagct
4201 aattgtatca cactccctat cagagttggt atgaacatga atgaagatgg tcccataata
4261 tttgaaaagc actccaggta caggtaccac tatgatgctg attattcccg ctgggattcc
4321 acacaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagttgg cacaaatagt ggcagaggac ctgctatcac caagtgtggt tgatgtgggc
4441 gatttcaaaa ttactattaa tgaaggccta ccatctggcg tgccttgcac ttcacaatgg
4501 aattctattg cccactggtt actcacccta tgtgccctgt ctgaagtgac aggactaggc
4561 cctgacatca tacaagccaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattggaccc agagaaattg actgcaaaac tcaaagaata tggtcttaaa
4681 cccacccggc ctgacaagac tgaggggcca ttggtaatta gtgaggacct gaatgggttg
4741 actttcctcc gccgaacagt cacccgcgat ccggcgggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcagacagct gtactggaca aggggaccca accatgaaga ccccagtgag
4861 actatgatac cacacgcaca gagacctgtg cagctcatgg cattgctagg agaatcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaagctgg ttatatctga 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 cgcagccata gccgcacctg tcactggcca
5221 aaataatata attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt
5281 cacagtgtca cccagaaact ctcctggaga aattttacta aacctagagt tgggccctga
5341 tctgaaccct tatttggctc atttgtcaag gatgtataat ggatatgctg gtggagttga
5401 agtccaggtt ctcctggcag ggaacgcgtt cactgccggg aagatcctct tcgccgctgt
5461 cccgccaaat tttccagtgg aattcttaag cccagcccag attacaatgc tcccacatat
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ttacctgatg ttaggaatac
5581 attcttccac tataataatc agcccaacag ccgcatgaga ttagtggcta tgctctacac
5641 cccccttaga tctaatggct caggtgatga tgttttcact gtttcttgca gggttttgac
5701 taggcctact cctgattttg agttcactta tctagtgcca ccctctgttg aatctaagac
5761 taaacccttt tctttaccca ttctaaccct ttctgagctc acaaattcga ggttcccagt
5821 ccccatcgat tcgcttttca ccgcccaaaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca cttgacggtg agctacaagg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcagg ggacgggtga cagcagaaac tgacaatcct gacaagtggc acatgcaact
6001 gcaaaacctt aatggcacaa catatgaccc aactgatgat gtgccagccc cactgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggcaagccaa agaaatgtgg gtaacgacgc
6121 gcccggctca accaggtccc atgaggcggt gatttcaacc tacagcccca gatttgttcc
6181 taaattaggc tctgtcaatt tcaaaagcaa tgacgatgat ttccaattgc agccaacaag
6241 attcacacca gtgggcatta atgatgatgg caaccaacca ttcagacaat gggaactacc
6301 agattattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggcgaa caattactat tcttcagatc ttctgtgcca tgttcaggag gttacaacca
6421 aggtattata gattgcctta tcccccaaga atggatccaa cacttctacc aggaatcagc
6481 accttctcag tcagaagtgg ccctaatcag gtacgtcaac cccgacacgg gtcgtacact
6541 gtttgaggca aaattgcata ggtcaggcta tatcactgtg gctcactctg gagactatcc
6601 tcttgttgtt ccggctaatg gatactttag atttgactct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggagctttc
6721 atcgcaggat tggcgggtga catgctcacg tcatcggtgg gctccctggt gaacgctggg
6781 gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 tttcaacatg ataaagagat gctccaagcg caggtgaacg caaccaggca gctgcaatct
6901 gagatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc cactgatgca
6961 gcgagggggg ccatcggtgc acccatgaca agggtgcttg actggtctgg cactcgatac
7021 tgggctccca attccacaaa gacaactggt tattcggggc aattcacctc ttcacctgtg
7081 cacatgccca gcccgagtgt cccacaatca aaatccgcaa agcccaagtc tctaggttct
7141 tcttcttctt ctagtagtgt ttacagtgtg cctacccaat taacttctct aacatctggc
7201 tcttctagta atgcttcttc tgcttctaca aaattgacaa atttaagctc cggctcttct
7261 caaaacagaa cagcagagtg ggtgaaccaa cagagaagtc tcagcccttt catgagtggc
7321 gcactcaata tctcgcatgt cacgccacct tcaagtaggg cctccagttc tgggacggtc
7381 tcaaccgtgc ccaaggaagt tttggactcc tggacatctg ctttcaacac acgcagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaacaatt
7501 ggctataata tgatttcttt aaaattttat atttggccaa tttggttt
//