Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373136 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7482
LOCUS PQ373136 7506 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV22-52b nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PQ373136
VERSION PQ373136.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7506)
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 7506)
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..7506
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV22-52b"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="28-Dec-2022"
/note="genotype: GII.17"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05729.1"
/translation="MKMASNDASVAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPLGETKQTQRPPRPPTPELVKKIPPPPPNGEDEPKIAYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKSLNGEAFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGKPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELTGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
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="XHF05730.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEVLLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGIVFGM
ASQRNVGNDAPGSTRAHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6706..7482
/gene="ORF3"
CDS 6706..7482
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XHF05731.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPNPSAPQSKPAKTRSLGSSSSSSSVYSMSTQST
SLTSGSSNASSASTKLTNLSSGSPQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSRA
SSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgtc gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaaaca gccgcccctg 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 tatcactatg ggctgtatgt tgagcggggg catgtactgg gagtacacaa accacctgcc
481 gcaataagcc ttgccaaaat tgaattaaca ccgctgtctc tctactggag agtggtttac
541 actccccaat atttgatagc tccagagacc cttaagagtt taaatggaga ggctttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttttaga cctcaacgac
661 tcttggctta gcagaagaat gatccaaaga acaactggat tcttcagacc gtatcaggac
721 tggaacagaa aacccttgcc 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 cctagccgtg
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 gatgcagtcc tggatttgga ggcaatagaa
1261 aacaaccaca tgaccactct ccttaaggac aaagacagcc tggccacata catgaggact
1321 cttgacttgg aagaagaaaa agcaaggaaa ctgtcatcca aatcggcgtc acctgacatt
1381 gtgggcacag taaacgcatt attggcaagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacaaagg cctgttgttg taatgatatc aggtaagcca
1501 ggtataggaa agactcatct ggccagagag ctagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa gaattggact 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 tgaggcttgt tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acatcgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gatcagactt ctcacacatt aaacttcagc tggcaccaca gggaggcttt
1981 gataagaatg gcaacacccc acatggcaaa ggtgtggtta agtctctgac gattggttct
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg atgaatttga gctccaaggc
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 tgtagttgaa
2341 aaggttcaaa atgcaacagt ccaaaccaac aatgaactta caggagcact ccaccacctg
2401 agatctgcaa ggataaggta ttatgttaaa tgtttccaag aagctattta ctctctactc
2461 caaattgccg gtgcagcctt cgtcaccaca cgcatcgtga ggcgcatgaa catctcaaac
2521 ctctggtcga agccacccgt cgaagagggt gatgagcctg aagacaaagg ggggtgcccc
2581 aagcccaggg atgaagatga cctcactatt gactctaaag acattaaagc agaagggaag
2641 aagggcaaga acaaatctgg ccggggcaag aaacacacag ctttctcatc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagggagg aaaggaatgg caaatactca
2761 attgaggaat acctccagga cagggataga tactatgaag agcttgccat tgctaaggcc
2821 actgaggaag acttctgtga agaggaggaa atcaaaattc gccagagaat cttccggccc
2881 accaggaaac 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 aacttcaacg
3121 catgtcatac caaaaggaat cactgaggcc tttggagttc ccatcaacca aattcaaatt
3181 cacaaatctg gagagttttg ccgcttgcgg tttccaaaac caatcaggcc agacgtgagt
3241 ggaatgatct tggaagaagg tgcccctgaa ggtactgttg 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 gcgacaacaa gggcacttat
3601 tgtggagccc ccatcttggg acctggcaac gcaccaaaat taagcacaaa aacaaaattc
3661 tggagatctt ccaacgcgcc gctccctcca ggtacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg gggcccatct ctacaacagg ttatgagaga ccaacttaaa
3781 ccttttacag agccaagagg gaagccacca aaaccaagtg tcctagaatc agcaaagaag
3841 accatcatta acgttctgga 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 gggatctgac
4141 ctatctacca tgattcgatg cgccagggca tttggtggcc tcatggatga actcaaagct
4201 aattgtatca cactccctgt cagagttggt atgaacatga atgaagatgg tcccataata
4261 tttgagaagc 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 ctgaagtgac aggactaggc
4561 cctgacatca tacaagccaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattagaccc agagaaattg actgcaaaac ttaaagaata tggtcttaaa
4681 cccacccggc ctgacaagac tgaggggcca ctggtaatta gtgaggacct gaatgggctg
4741 actttccttc gccgaacagt cacccgcgat ccagcgggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca aggggaccca accatgaaga ccccagtgag
4861 actatgatac cacatgcaca 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 agttttacta aacctagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtacgctg gtggagttga
5401 agtccaggtt ctcctggcag ggaacgcgtt cactgccggg aagatcctct tcgccgctgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag attacaatgc tcccacacat
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ttacctgatg ttaggaatac
5581 attcttccat tataataacc agcccaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccccttaga tctaatggct caggtgatga tgttttcacc gtttcttgca gagttttgac
5701 tagacctact cctgattttg agttcactta tctagtgcca ccctctgttg aatctaagac
5761 taagcccttt tccttaccca ttttaaccct ttctgagctc acaaattcga ggttcccggt
5821 ccccattgat tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca cttgatggtg agctacaagg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcaga ggacgggtga cagcagaaac tgacaatcct gataagtggc acatgcaact
6001 gcaaaacctc aatggcacaa cgtatgaccc aactgatgat gtgccagccc cactgggtac
6061 acctgacttc aagggcatcg tgtttgggat ggcaagccaa agaaatgtgg gtaacgatgc
6121 gcccggctca accagggctc atgaggcggt gatttcaacc tacagtccca gatttgtccc
6181 caaattaggc tctgttaatt ttaaaagtaa tgatgatgat ttccaattgc agccaacaag
6241 attcacacca gtgggcatca atgatgacgg cgaccacccg ttcagacaat gggaactgcc
6301 agactattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggtgag caattattat tcttcagatc ttccgtgcca tgttcaggag gttacaacca
6421 aggtattata gattgtctta tcccccaaga atggatccaa cacttctacc aggaatcagc
6481 accttctcag tcagacgtgg ccctgatcag gtacgtcaat cccgacacgg gtcgcacact
6541 gtttgaggca aaattgcaca gatctggcta tatcactgtg gctcactctg gagattatcc
6601 tcttgttgtt ccggctaatg gatactttag atttgactct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggagctttc
6721 attgcaggat tggcgggtga catgctcacg tcatccgtgg gctccctggt gaacgcaggg
6781 gcaaacgcca tcaaccaaaa 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 acccgagtgc tccacaatca aaacccgcaa agaccagatc tctaggttct
7141 tcttcttctt ctagtagtgt ttatagtatg tctacccaat caacttctct aacatctggc
7201 tcttctaatg cttcttctgc ttctacaaaa ttgacaaatt taagctctgg ctcccctcaa
7261 aacaggacag cagagtgggt gaaccaacaa agaagtctca gccctttcat gagtggcgca
7321 cttaacatct cacatgtcac gccaccttca agtagggcct ccagttctgg gacggtctca
7381 accgtgccca aggaagtttt ggactcctgg acatctgcat ttaacacacg cagacagccg
7441 ctcttcgcac acctcagagt gaggggggag tcacgtgttt agtgaaaaga aataattggc
7501 tataat
//