Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373147 | GII.17 | |
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| GII.P17 |
ORF1: 1..5108
ORF2: 5089..6711
ORF3: 6711..7490
LOCUS PQ373147 7496 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV24-14 nonstructural polyprotein
(ORF1) gene, partial cds; and VP1 (ORF2) and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ373147
VERSION PQ373147.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7496)
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 7496)
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..7496
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV24-14"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="27-Mar-2024"
/note="genotype: GII.17"
gene <1..5108
/gene="ORF1"
CDS <1..5108
/gene="ORF1"
/codon_start=3
/product="nonstructural polyprotein"
/protein_id="XHF05762.1"
/translation="KMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGARS
KQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVAQ
PDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAA
ISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDII
GKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARKL
STKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVK
TLDELKQAIKNISIKKCQIVYNGCTYTMESDGRGKVVVEKVQNATVQTNNELVGALHH
LRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDRG
GCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLRDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGTEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP
EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTTP
GDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGDDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGVP
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..6711
/gene="ORF2"
CDS 5089..6711
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XHF05763.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGSDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRIGNNDDFQFQPTKFTPVGIN
DDDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6711..7490
/gene="ORF3"
CDS 6711..7490
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XHF05764.1"
/translation="MAGAFIAGLAGDLLTSSVGSLVNAGANAINQKVDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSSVPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGPSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 tgaagatggc gtctaacgac gcttccgctg ccgttgctgg caaaaacaac aacaacgaca
61 aggaaaaatc ttcaagtgac agcttgtttg ctaatatgtc tgtcactttt aagaaagccc
121 tcggggcgcg gtctaaacaa ccgcccccgg gagaaacaaa acaaatacaa aaaccaccaa
181 ggccaccgac accggaattg gtgaagagaa tacctccacc cccacccaat ggcgaggatg
241 aaccagggat agtgtacaag gtgggagagg gtgtgtctgg gctgcccgac ctaacaactg
301 tggcacaacc tgacgcacaa aacacagctt acagtgttcc cccacttagc cagagagaag
361 tcggcgaagc taaagaaccg ctgcctggct ccattctgga aatgtgggat ggtgagatct
421 accactatgg gctgtatgtt gagcgggggc atgtgctcgg agtacacaaa ccacctgctg
481 caataagcct tgccaaaatt gaaataacac cgctgtctct ttactggaga gtggtctaca
541 ctccccagta tttgatagat ccaggaactc ttaagaactt gagtggagag actttcccat
601 acacggcctt tgataataac tgctatgcct tctgttgctg ggtcctagac ctcaacgact
661 cctggcttag caggaggatg attcaaagaa caactggatt tttcaaacct tatcaggatt
721 ggaacagaaa acccttacca accatggatg aaccgaaaat caagaaggcc gcgaatgctg
781 tcctatgcgc tctctcctca ctcttcacta ggcccattaa ggacatcatt gggaagctta
841 gaccactgaa cattcttaat atactggcaa cctgcgattg gacttttgca ggcatagtgg
901 aatccttgat ccttcttgct gaactctttg gggtgttctg gacaccccca gatgtgtctg
961 cgatgattgc tcccttactc ggcgactacg agatgcaagg ccccgaagac ctggctgtgg
1021 aacttgtacc cgtggtgatg ggaggaatag gtttggtgtt aggattcacc aaagaaaaga
1081 tcggcaagat gctttcatca gctgcgacca cacttagggc ctgcaaggat ttaggatctt
1141 atggattgga gatactcaaa ttggtcatga agtggttctt ccccaaaaag gaggaggcta
1201 acgaactagc catggtgagg gccattgagg atgcagtcct ggatttggag gcaatagaaa
1261 acaatcacat gaccaccctt ctcaaggata aagacagcct ggccacatac atgaggactc
1321 ttgacttgga agaagagaaa gcaaggaaac tgtcgaccaa atcggcgtca cctgacatcg
1381 tgggtacaat aaacgcactg ctggctagga tagcagccgc cagatcactg gtccacaagg
1441 ctaaggagga gctctcgagc agacagagac ctgttgttgt aatgatatca ggtagaccag
1501 gtataggaaa gacccatctg gccagagagc tagccaagaa agttgcgtca acactgtcag
1561 gcgaccaaag aatcggactg gtacctagga atggtgtcga ccattgggac gcctacaagg
1621 gagaaagggt ggtcctgtgg gatgattatg gtatgagcaa ccctatacag gacgcactga
1681 ggctccaaga attagctgac acctgtcctc tgaccctaaa ttgtgatagg attgaaaaca
1741 aaggaaaagt gttcgacagt gacgccataa ttataacaac caaccttgca aacccagcac
1801 cactagacta tgtcaacttt gaggcctgct ctagacgcat agacttcttg gtgtatgcag
1861 acgcacctga cattgagaag gctaagcgtg acttccctgg ccaaccagat atgtggaaag
1921 accatttcag accagacttc tcacacatta aacttcagct ggcaccacag ggaggttttg
1981 acaaaaatgg caacacccca catggcaaag gtgtggtaaa gtccctgacg attggttccc
2041 tgatcgccag ggcctccggc ttgctccacg agagaatgga tgagttcgag ctccaaggct
2101 ctgacctgcc aaccttcaat tttgaccgca ataaagtcgc tgccttcaga caattggcag
2161 ctgaaaacaa atatggactt atggacacat tgagggtcgg caaccaattg aaaagtgtta
2221 agaccctgga tgagctgaag caggccataa agaacatcag tatcaagaag tgtcaaatag
2281 tgtataatgg atgcacctat accatggaat ctgatgggag gggcaaggtt gtggttgaaa
2341 aggtacaaaa cgcaacagtt caaaccaaca atgaactcgt aggggcactc caccacctga
2401 ggtctgcaag gataagatac tatgttaaat gtttccaaga agccatttac tctctactcc
2461 aaattgctgg cgcagccttt gtcacctcac gcatcgtgag gcgcatgaac atatcaaacc
2521 tctggtcgaa gccacccatt gaggagggtg atgagcctga ggacagagga gggtgcccca
2581 agcccaggga tgaagatgat ctcactattg actctagaga cattaaagtg gaagggaaga
2641 agggcaagaa caagtctggc cggggcaaga aacacacagc cttctcttcc aagggcctca
2701 gtgatgaaga gtacgatgag tacaagagaa tcagagagga gaggaatggc aaatactcaa
2761 tagaggaata cctccgagac agggacaggt actatgaaga gcttgccatt gctaaggcca
2821 ctgaggaaga cttctgtgaa gaggaggaga tcaaaatccg ccagagaatc ttccgaccca
2881 ccaggaagca acggaaagag gaaagggcca cgctcgggct tgtcacagga acggaaatca
2941 gaaagaggaa tccagatgat tttaaaccaa aaggaaaatt gtgggctgat gacaacagga
3001 gcgtggatta caatgagagg atagattttg aggctccccc gagtgtttgg tctaggatag
3061 tcaactttgg cacaggctgg ggattctggg tctctccaag tctctttata acttcaacac
3121 acgtcatacc aaaaggaatc actgaggcct ttggagtgcc cataaaccaa atccaaatcc
3181 acaaatctgg agaattttgc cgcttgcggt ttccaaagcc aattagacca gacgtgagtg
3241 ggatgatctt ggaagagggc gcccctgaag gcactgttgt gtctattctc atcaaaagga
3301 caacagggga gctgatgcct cttgcagtca gaatggggac tcatgccaca atgaaaatcc
3361 aaggtagaac ggtgggtggt cagatgggta tgcttctcac tggctcaaat gctaaaggta
3421 tggatctagg cacaacgcca ggtgactgcg gatgtccata catatacaaa aggggcaatg
3481 accttgtggt cattggggtg cacactgcag cagctcgtgg aggcaacacg gtcatatgtg
3541 ccacacaggg aagtgagggt gaagccactc ttgaaggaga tgacaacaag ggtacctatt
3601 gtggagcccc cattttggga cctggcaatg caccaaaatt gagcacaaag acaaaattct
3661 ggagatcctc taatgcaccg cttcccccag gtacttatga accagcatac cttggtggga
3721 gggacccgcg cgtgaaggga ggcccatctc tgcaacaagt tatgagagat caactcaaac
3781 cttttacaga gcccagaggg aagccaccaa acccaaatgt cttagagtca gcaaagaaga
3841 ctatcatcaa tgttctggaa cagaccattg accctcctca aaagtggtca tatgcccaag
3901 cttgtgcatc cctcgacaag acaacctcca gtggataccc acaccacgtt cggaagaatg
3961 actactggag tggtgaatcc ttcacaggaa aacttgcaga tcaggcttca aaagcaaatc
4021 tcatgtatga ggagggcaag catatgcaac cagtctacac cgcagcactc aaagacgagc
4081 tcgtgaaaac tgacaaaatt tatggcaaaa tcaagaaaag actcctatgg ggctctgacc
4141 tctccacaat gattcgatgc gccagagcat ttggtggtct catggatgaa ctcaaagcaa
4201 attgtatcac actccctatc agagttggta tgaatatgaa tgaagatggt cccataatat
4261 ttgagaaaca ttccaggtac aggtaccact atgatgctga ttactcccgc tgggactcca
4321 cacaacagcg ggcagtgctg gaagcggcac ttgaaatcat ggtgagattt tctgctgagc
4381 cacagctggc acaaatagtg gcagaggacc tgctgtcacc aagtgtggtt gatgtgggcg
4441 atttcaaaat cgctatcaat gaaggcctac catctggcgt gccttgcacc tcacaatgga
4501 attctattgc ccactggtta cttaccttgt gtgccctttc tgaagtgacg ggattaggtc
4561 ctgacatcat tcaagctaac tccatgtact ctttctatgg tgatgatgag attgtgagca
4621 cagacataaa attggaccca gagaaattaa ccgcaaagct caaagaatat ggccttaaac
4681 ccactcggcc cgacaaaact gaagggccgt tggtgattag tgaagacctg aatgggttaa
4741 ctttccttcg ccggacagtc acccgtgatc cagcaggttg gtttggaaag ttggaccaaa
4801 actctatcct caggcagttg tactggacaa gaggacccaa ccatgaagac cccagtgaga
4861 ccatgatacc acacgcacaa agacctgtgc agctcatggc actactagga gagtcctctc
4921 tacatggacc ctcattttac agcaaggtta gcaagttagt tatatctgaa cttaaagagg
4981 gaggaatgga tttttatgtg cccagacaag aatcaatgtt cagatggatg aggttctcag
5041 atctaagcac atgggagggc gatcgcaatc tggctcccag ttttgtgaat gaagatggcg
5101 tcgaatgacg ccgctccatc taatgatggt gctgctggtc tcgtaccaga gggcaacaac
5161 gagacccttc ccctagaacc agttgcgggc gcagctatag ccgcacccgt cactggccaa
5221 aataatataa ttgacccctg gattagaaca aattttgtgc aagcaccaaa tggagagttc
5281 acagtatcac ccagaaactc tcctggagaa attttattaa atttagagtt gggccctgat
5341 ttgaaccctt atttggctca tttgtcaagg atgtacaatg ggtatgctgg tggagtggaa
5401 gttcaggttc tcctggcagg gaacgcgttc actgccggaa agatcctctt cgccgccgtc
5461 ccgccaaatt tcccagtgga attcttaagc ccagcccaga tcacaatgct cccacactta
5521 atagtagatg ttaggactct tgaaccaatc atgatcccac tccctgatgt taggaacacg
5581 ttcttccatt ataataatca gcctaacagc cgcatgagat tagtggctat gctctatacc
5641 ccactcagat ctaatggttc aggtgatgat gtctttactg tctcttgtag ggttttgact
5701 aggcctactc ctgattttga gttcacttat ttagtgccac cttctgttga atctaaaacc
5761 aagccttttt ccctacctat tttaaccctt tctgagctta caaattcgag gtttccagtc
5821 cccatcgatt cgctttttac cgcccagaat aatgtgttgc aggtgcagtg tcaaaatggc
5881 aggtgtacac ttgatggtga gctacaaggc acaacccagt tgctcccaac cggcatctgt
5941 gcattcagag gacgggtgac agcacaaatc aatcaacgtg acaggtggca catgcaactg
6001 caaaacctca atggcacaac atatgaccca actgatgatg tgccagcccc gctgggtaca
6061 cctgacttca agggcgtcgt gtttggaatg gtaagccaaa gaaatgtggg tagtgatgcg
6121 cctggctcaa ccagagccca acaggcgtgg gtttcaacct atagccccca gtttgtcccc
6181 aaattaggtt ctgtcaatct tagaattggt aataatgatg acttccaatt ccagccaaca
6241 aaattcacac cagtgggcat caatgatgat gatgatgatc acccgttcag acagtgggag
6301 ctaccaaatt attcagggga gcttaccttg aacatgaatc ttgccccccc agttgctcca
6361 aatttccctg gtgaacaatt gttattcttc agatctttcg tgccatgctc aggaggttac
6421 aaccaaggta ttatagattg tcttattccc caagaatgga tccaacattt ctatcaggaa
6481 tcagcaccct cccagtcaga tgtggccctg atcaggtatg tcaaccccga tacgggacgt
6541 acactgtttg aagcaaaatt gcacagatct ggttacatta ctgtggctca ctctggagat
6601 tatcctcttg ttgttccggc taatggacac tttagatttg attcttgggt aaatcagttt
6661 tactcactcg ccccaatggg aactgggaat gggcgaagga gggctcagta atggctgggg
6721 ctttcattgc aggattggca ggcgacttgc tcacgtcatc tgtgggctcc cttgtgaacg
6781 caggggcaaa cgccatcaac caaaaggtag actttgaaaa caataaacaa ctccagtctg
6841 cttcctttca gcatgataaa gagatgctcc aagcgcaggt gagggcaacc aagcagctgc
6901 aatctgaaat gatagcccta aaacaggggg ttttggccgc aggcggcttt tcccccactg
6961 atgcagcaag gggatccatt ggtgcaccca tgacaaaggt gcttgactgg tctggcactc
7021 gatactgggc gcccaattcc acaaagacaa ctggctattc gggacaattc acctcttcac
7081 ctgtgcatat gtctagccca aatgctccac aatcaaaacc tgcaaagcct aggtcttcag
7141 ttccttcctc ctcttctagt agtgtttata gtatgtacac tcaatctact catttgacat
7201 ctggctcttc tagtaatgct tcttctgcct ctacaaagtt gacaaattta agctctggcc
7261 cctctcaaaa cagaacagca gagtgggtga atcaacagag aagtcttagc cctttcatga
7321 gtggcgcact taacatctca catgttacgc caccctcaag tagggcttcc agttctggga
7381 cggtctcaac cgtgcccaag gaagttttgg actcctggac gtctgcgttc aacacacaca
7441 gacagccgct cttcgcacac ctcagggtga ggggggagtc acgtgtttag tgaaaa
//