Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373134 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7485
LOCUS PQ373134 7542 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV22-38 nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PQ373134
VERSION PQ373134.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7542)
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 7542)
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..7542
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV22-38"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="25-Sep-2022"
/note="genotype: GII.17"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05723.1"
/translation="MKMASNDASVAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTQRPPRPPTPELVKKIPPPPPNGEDEPKIAYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGEAFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYIRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELTGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPAEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRREERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIVINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEELNGLTFLRRAVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVIAELKEGGMDFYVP
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="XHF05724.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVSIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRAHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
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="XHF05725.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAISQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSAPQSKPAKPRSLGTSSSSSSVYSMSTQST
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQKSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgtt gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaaaca gccgcccccg ggagaaacaa aacaaacaca aagaccacca
181 aggccaccga caccggaatt ggtgaagaag atacccccac ccccccccaa tggcgaggat
241 gaaccaaaaa tagcgtataa ggtgggagaa ggtgtgtctg ggctgcccga cttgacaacc
301 gtggcacaac ctgacgcaca gaacacagcc tacagtgtcc ccccacttag ccagagagag
361 gtcggcgaag ctaaagaacc gttgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg gactgtatgt tgagcggggg catgtactgg gagtacacaa accacctgcc
481 gcaataagcc ttgccaaaat tgaattaaca ccgctgtctc tctactggag agtggtttac
541 actccccaat atttgatagc tccagagacc cttaagaatt taaatggaga ggctttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttttaga cctcaacgac
661 tcttggctta gcagaagaat gatccaaaga acaactggat ttttcagacc gtatcaggac
721 tggaacagaa aaccattgcc aaccatggat gaaccaaaaa tcaagaaagc cgcgaatgct
781 gttctgtgtg ctctctcctc actcttcact aggcccatca aagatgtcat tggaaagctc
841 aaaccactga acattatgaa catactggca acttgtgatt ggacttttgc gggcatagtg
901 gaatccatga tccttcttgc tgagctcttt ggggtgttct ggacgccccc agatgtgtct
961 gcaatgattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggctgtg
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 tggacttgga ggcaatagaa
1261 aacaaccaca tgaccactct ccttaaggac aaagacagcc tggccacata cataaggact
1321 cttgacttgg aagaagaaaa agcaaggaaa ctgtcatcca aatcggcgtc acctgacatc
1381 gtgggcacag taaacgcatt attggcaagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacagagg cctgttgttg taatgatatc aggtaggcca
1501 ggtataggaa agactcatct ggccagagag ctagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact gatacctaga aatggcgtcg accattggga cgcctacaaa
1621 ggagagcggg tggttctgtg ggatgactat ggcatgagca accctataca ggacgcactg
1681 aggcttcaag aattggctga cacctgtcct ctgaccctaa attgtgacag gattgaaaac
1741 aaaggaaaag tgttcgacag tgacgccata attataacaa ccaacctcgc aaacccagca
1801 ccactggatt atgtcaactt tgaggcttgc tctagacgca tagacttctt agtgtatgca
1861 gacgcacctg acatcgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gatcagactt ctcacacatt aaacttcagc tggcaccaca gggaggcttt
1981 gataagaatg gcaacacccc acatggcaaa ggtgtggtca agtctctgac gattggttct
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg atgaatttga gctccaaggt
2101 tctgacttac 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 aatgaactta caggagcact ccaccacctg
2401 agatctgcaa gaataaggta ttatgttaaa tgtttccaag aagctattta ctctctactc
2461 caaattgctg gtgcagcctt cgtcaccaca cgcatcgtga ggcgcatgaa catctcaaac
2521 ctctggtcga agccacccgc cgaagagggt gatgagcctg aggacaaagg ggggtgcccc
2581 aagcccaggg atgaagatga cctcactatt gactctaaag acattaaagc agaagggaag
2641 aagggcaaga acaaatctgg ccggggcaag aaacacacag ctttctcatc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagggagg aaaggaatgg caaatactca
2761 attgaagaat acctccagga cagggataga tactatgaag agcttgccat tgctaaggcc
2821 actgaggaag atttctgtga agaggaggaa atcaaaattc gccagagaat cttccggccc
2881 accaggaagc aacggagaga ggaaagagcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga acccagatga ctttaagcca aaaggaaaat tgtgggctga tgacaacaga
3001 agtgtggact acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gcacaggatg gggattctgg gtctccccaa gtctctttat aacttcaaca
3121 catgtcatac caaaaggaat cactgaggcc ttcggagttc ccattaacca aattcaaatt
3181 cacaaatctg gagagttttg ccgcttacgg 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 gaagtgaagg cgaagccacc ctcgaaggag gtgacaacaa gggcacctat
3601 tgtggagccc ccatcttggg acctggcaac gcaccaaaat taagcacaaa aacaaaattc
3661 tggagatctt ccaacgcgcc gcttcctcca ggtacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg gggcccatct ctacaacagg ttatgagaga ccaacttaaa
3781 ccttttacag agccaagagg gaagccacca aaaccaagtg tcctagaatc agcaaagaag
3841 accatcatta atgttctgga gcaaaccatt gacccccctg aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcaccacgt ccggaagaat
3961 gactattgga gtggtgaatc cttcacgggg aaacttgcag accaggcctc aaaagcaaac
4021 cttatgtatg aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaag atcaagaaaa gactcctgtg gggatctgac
4141 ctatctacca tgattcgatg cgccagggca tttggtggcc tcatggatga gctcaaagca
4201 aattgtatca cactccctgt cagagttggt atgaacatga atgaagatgg tcccataata
4261 tttgaaaagc actccaggta caggtaccac tatgatgctg attactcccg ctgggattcc
4321 acacaacagc gggcagttct 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 gtgaggaact gaatgggctg
4741 actttccttc gccgagcagt cacccgcgat ccagcgggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca aggggaccca accatgaaga ccccagtgag
4861 actatgatac cacacgcaca gagacctgtg cagctcatgg cactgctagg agagtcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaagctgg tcatagctga 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 tcactggtca
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 ttaggaacac
5581 attcttccac tataacaacc agcccaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccccttaga tctaatggct caggtgatga tgttttcact gtttcttgca gagttttgac
5701 tagacctact cctgattttg agttcactta tctagtgcca ccctctgttg aatctaagac
5761 taagcccttt tccttaccca ttttaaccct ttctgagctc acaaattcga ggttcccggt
5821 ctccattgat tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca cttgacggtg agctacaagg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcaga ggacgggtga cagcagaaac tgacaatcct gataagtggc acatgcaact
6001 gcaaaacctc aatggcacaa cgtatgaccc aactgatgat gtgccagccc cactgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggcaagccaa agaaatgtgg gtaacgatgc
6121 gcccggctca accagggctc atgaggcggt gatttcaacc tacagcccca gatttgttcc
6181 caaattaggc tctgtcaatt ttaaaagtaa tgatgatgat ttccaattgc agccaacaag
6241 attcacacca gtgggcatca atgatgatgg cgaccacccg ttcagacaat gggaactgcc
6301 agactattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggtgaa caattattat tcttcagatc ttccgtgcca tgttcaggag gttacaacca
6421 aggtattata gattgtctta tcccccaaga atggatccaa cacttctacc aggaatcagc
6481 accttctcag tcagacgtgg ccctgatcag gtacgtcaac cccgacacgg gtcgcacact
6541 gtttgaggca aaattgcaca gatctggcta tatcactgtg gctcactctg gagactatcc
6601 tcttgttgtt ccggctaatg gatactttag atttgactct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggagctttc
6721 attgcaggac tggcgggtga catgctcacg tcatccgtgg gctccctggt gaacgcaggg
6781 gcaaacgcca tcagccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 tttcaacatg ataaagagat gctccaagcg caggtgaatg caaccaagca gctgcaatct
6901 gagatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc cactgatgca
6961 gcgagggggg ccatcggtgc acccatgaca aaggtgcttg actggtctgg cactcgatat
7021 tgggctccca attccacaaa gacaactggt tattcggggc aatttacctc ttcacctgtg
7081 cacatgccca gcccgagtgc tccacaatca aaacccgcaa agcccaggtc tctaggtact
7141 tcttcttctt ctagtagtgt ttatagtatg tctacccaat caacttctct aacatctggc
7201 tcttctagta atgcttcttc tgcttctaca aaattgacaa atttaagctc tggctcctct
7261 caaaacagga cagcagagtg ggtgaaccaa cagaaaagtc tcagcccttt catgagtggc
7321 gcactcaaca tctcacatgt tacgccacct tcaagtaggg cctccagttc tgggacggtc
7381 tcaaccgtgc ccaaggaagt tttggactcc tggacatctg cattcaacac acgcagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt
7501 ggctataata tgatttcttt tttaaatttg gccaatttgt at
//