Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ373130 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6712
ORF3: 6712..7491
LOCUS PQ373130 7552 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV22-16 nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PQ373130
VERSION PQ373130.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7552)
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 7552)
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..7552
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV22-16"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="19-Apr-2022"
/note="genotype: GII.17"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05711.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR
SKQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGCTYAMESDGRGKVVVEKVQNATVQTNNELVGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDR
GGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKGMDLGTT
PGDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGDDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
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..6712
/gene="ORF2"
CDS 5090..6712
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XHF05712.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPTGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWISTYSPQFVPKLGSVNLRISNNDDFQFQPTKFTPVGVN
DDDDDHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6712..7491
/gene="ORF3"
CDS 6712..7491
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XHF05713.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPNAPQSKPAKPRSLAPSSSSSSIYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt gctaatatgt ctgtcacttt taagaaagcc
121 ctcggggcgc ggtctaaaca accgcccccg ggagaaacaa aacaaataca aaaaccacca
181 aggccaccga caccggaatt ggtgaagaga atacctccac ccccacccaa tggcgaggac
241 gaaccaggga tagtgtacaa ggtgggagag ggtgtgtctg ggctgcccga cctaacaact
301 gtggcacaac ctgacgcaca aaacacagct tatagtgttc ccccacttag ccagagagaa
361 gtcggcgaag ctaaagaacc gctgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg ggctgtatgt tgagcggggg catgtgctcg gagtacacaa accacctgct
481 gcaataagcc ttgccaaaat tgaaataaca ccgttgtctc tctactggag agtggtctac
541 actccccagt atttgataga tccaggaact ctcaagaact tgagtggaga gactttccca
601 tacacggcct ttgataacaa ctgttatgcc ttctgttgtt gggtcctaga cctcaacgac
661 tcctggctta gcaggagaat gatccaaaga acaactggat ttttcaaacc ttatcaggat
721 tggaacagaa aacccttacc aaccatggat gaaccgaaaa tcaagaaggc cgcgaatgct
781 gtcctatgcg ctctctcctc actcttcact agacccatta aggacatcat tgggaagctt
841 agaccactga acattcttaa tatactggca acctgcgatt ggacttttgc aggcatagtg
901 gaatccttga tccttcttgc tgaactcttt ggggtgttct ggacaccccc agatgtgtct
961 gcgatgattg ctcccttact cggtgactac gagatgcagg gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtgat gggaggaata ggtttggtgt taggattcac caaagaaaag
1081 atcggcaaga tgctttcgtc agctgcgacc acacttaggg cctgcaagga tctaggatct
1141 tatggattgg agatactcaa attggtcatg aagtggttct tccccaagaa ggaggaggct
1201 aacgaactag ccatggtaag ggccattgag gatgcagtcc tggatttgga ggcaatagaa
1261 aacaatcata tgaccaccct tctcaaggat aaagacagcc tggccacata catgaggact
1321 cttgacttgg aagaagagaa agcaaggaaa ctgtcaacca aatcggcgtc acctgacatc
1381 gtgggtacaa taaacgcatt gttggctagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacagaga cctgttgttg taatgatatc aggtagacca
1501 ggtataggaa agacccatct ggccagagag ctagccaaga aagttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact ggtacctagg aatggcgtcg accattggga cgcctacaag
1621 ggagaaaggg tggtcctgtg ggatgattat ggtatgagca accctataca agacgcactg
1681 aggctccaag aattggctga cacctgtcct ctgaccctaa attgtgatag gattgaaaac
1741 aaaggaaaag tgttcgacag tgatgccata attataacaa ccaaccttgc aaacccagca
1801 ccactagact atgtcaactt tgaggcctgc tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acattgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gatcatttta gaccagactt ctcacacatt aaacttcagc tggcaccaca gggaggtttt
1981 gacaaaaatg gcaacacccc acatggcaaa ggtgtggtaa agtccctgac gattggttct
2041 ctgatcgcca gggcctccgg cttgctccac gagagaatgg atgaattcga gctccaaggc
2101 tctgacctgc caaccttcaa ttttgaccgc aacaaagtcg ccgccttcag acaattagca
2161 gctgaaaaca aatatggtct tatggacaca ttgagggtcg gcaaccaact gaaaagtgtt
2221 aaaaccctgg atgagctgaa gcaggccata aagaacatca gtatcaagaa gtgtcagata
2281 gtgtataatg gatgtaccta tgccatggaa tctgatggga ggggcaaggt tgtggttgaa
2341 aaggtacaaa acgcaacagt tcaaaccaac aatgaacttg taggggcgct ccaccacctg
2401 agatccgcaa ggataagata ctatgttaaa tgttttcaag aagccattta ctctctactc
2461 cagattgctg gtgcagcctt tgtcacctca cgcatcgtga ggcgcatgaa catatcaaac
2521 ctctggtcga agccacccat cgaggagggt gacgagcctg aagacagagg aggatgcccc
2581 aagcccaggg atgaagatga cctcactatt gactctagag acattaaagt ggaagggaag
2641 aagggcaaga acaagtctgg ccggggcaag aaacacacag ccttctcttc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagagagg agaggaatgg caaatactca
2761 atagaggaat acctccaaga tagggacaga tactatgaag agcttgccat tgctaaggcc
2821 actgaggagg acttctgtga ggaggaggag atcaaaatcc gccagagaat cttccgaccc
2881 accaggaagc agcggaaaga ggaaagggcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga atccagatga ctttaaacca aaaggaaaat tgtgggctga tgacaacagg
3001 agcgtggatt acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gcacaggctg gggattctgg gtttctccaa gtctctttat aacttcaaca
3121 cacgtcatac caaaaggaat cactgaggcc tttggagtgc ccataaacca aatccaaatt
3181 cacaaatctg gagaattttg ccgcttgcgg tttccaaagc caattagacc agacgtgagt
3241 gggatgatct tggaagaggg cgcccctgaa ggcactgttg tgtctattct catcaaaagg
3301 acaacagggg agctgatgcc tcttgcagtc agaatgggga ctcatgccac aatgaaaatc
3361 caaggtagaa cggtgggtgg tcagatgggt atgcttctca ctggctcaaa tgctaaaggc
3421 atggatctag gcacaacgcc aggtgattgc ggatgtccat acatatacaa aaggggcaat
3481 gaccttgtgg tcattggggt gcacactgca gcagctcgtg gaggcaacac ggtcatatgt
3541 gccacacagg gaagtgaggg tgaagccact cttgaaggag atgacaacaa gggtacctat
3601 tgtggagccc ccattttggg acctggcaat gcaccaaaat tgagcacaaa gacaaaattc
3661 tggagatcct ctaacgcacc gcttccccca ggtacttatg aaccagcata ccttggtggg
3721 agagacccgc gcgtgaaggg aggcccatct ctgcagcaag ttatgagaga tcaactcaaa
3781 ccttttacag agcccagagg gaagccacca aacccaaatg tcttagagtc agcaaagaag
3841 actatcatca atgttctgga acaaaccatt gacccccctc aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcaccacgt ccggaagaat
3961 gactactgga gtggtgaatc cttcacagga aaacttgcag atcaggcttc aaaagcaaat
4021 ctcatgtatg aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaaa atcaagaaaa gactcctgtg gggctccgac
4141 ctctccacaa tgattcgatg cgccagagca tttggtggtc tcatggatga attcaaagca
4201 aattgtatta cactccctat cagagttggt atgaatatga atgaagatgg tcccataata
4261 tttgagaaac actccaggta caggtaccac tatgatgctg attactcccg ctgggactcc
4321 acacaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagctgg cacaaatagt ggcagaggac ctgctgtcac caagtgtggt tgatgtgggc
4441 gatttcaaaa tcgctatcaa tgaaggctta ccatctggcg tgccttgcac ctcacaatgg
4501 aattctattg cccactggtt acttaccttg tgtgcccttt ctgaagtgac aggattaggt
4561 cctgacatca tacaagctaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattggaccc agagaaattg accgcaaagc tcaaagaata tggccttaaa
4681 cccactcggc ccgacaaaac tgaggggccg ttggtgatta gtgaggacct gaatgggttg
4741 actttcctcc gccgaacagt cacccgtgat ccagcaggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagtt gtactggaca agaggaccca accatgaaga ccccagtgag
4861 accatgatac cacacgcaca aagacctgtg cagctcatgg cactactagg agagtcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaaattag taatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcagatggat gaggttctca
5041 gatctaagca catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc
5101 gtcgaatgac gccgctccat ccaatgatgg tgctgctggt ctcgtaccag agggcaacaa
5161 cgagaccctt cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggcca
5221 aaataatata attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt
5281 cacagtgtca cccagaaact ctcctggaga aattttatta aatttagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtatgctg gtggagtgga
5401 agttcaggtt ctcctggcag ggaacgcgtt cactgccgga aagatcctct tcgccgccgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag atcacaatgc tcccacattt
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ctccctgacg ttaggaatac
5581 attcttccat tatagtaacc agcctaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccactcaga tctaatggct caggtgatga tgtctttact gtctcttgca gggttttgac
5701 taggcctact cctgattttg agttcactta tttagtgcca ccttctgttg aatccaaaac
5761 caagcctttt tccttaccta ttttaaccct ttctgagctc acaaattcga ggtttccagt
5821 ccccatcgat tcgcttttta ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgtaca cttgatggcg agttacaagg cacaacccag ttgctcccaa ctggcatctg
5941 cgcattcaga ggacgggtga cagcacaaat taaccaacgt gacaggtggc acatgcaact
6001 gcaaaacctc aatggtacaa catatgaccc aactgatgat gtgccagccc cgctgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggtaagccaa agaaatgtgg gtaatgatgc
6121 gcctggctca accagagccc aacaggcgtg gatttcaacc tatagccccc aatttgtccc
6181 caaattaggt tctgtcaatc tcagaattag taataatgat gatttccaat tccagccgac
6241 aaaattcaca ccagtgggcg tcaatgatga cgatgatgac cacccgttca gacagtggga
6301 actaccaaac tattcagggg agcttacctt gaatatgaat cttgcccccc cagttgctcc
6361 aaattttcct ggtgaacaat tgttattctt cagatctttc gtgccatgct caggaggtta
6421 caaccaaggt attatagatt gtcttattcc ccaagaatgg atccaacatt tctatcagga
6481 atcagcaccc tcccagtcag acgtggccct aatcaggtat gtcaaccccg atacgggacg
6541 tacactgttt gaagcaaaat tgcatagatc tggttacatt actgtggctc attctggaga
6601 ctatcctctt gttgttccgg ctaatggaca ctttagattt gattcttggg taaatcagtt
6661 ttactcactc gccccaatgg gaactgggaa tgggcgaagg agggctcagt aatggctggg
6721 gctttcattg caggattggc aggcgacatg ctcacgtcat ctgtgggctc ccttgtgaac
6781 gcaggggcaa acgccatcaa ccaaaagata gactttgaaa ataacaaaca actccagtct
6841 gcttcctttc agcatgataa agagatgctc caagcgcagg tgagggcaac caagcagctg
6901 caatctgaaa tgatagccct aaaacagggg gttttggccg caggcggctt ttcccccact
6961 gatgcagcac ggggatccat tggtgcaccc atgacaaagg tgcttgactg gtctggcact
7021 cgatactggg cgcccaattc cacaaagaca actggctatt cgggacaatt cacctcttca
7081 cctgtgcata tgcctagccc aaatgctcca caatcaaaac ctgcaaagcc taggtctcta
7141 gctccttcct cttcttctag tagtatctac agtatgtaca ctcagtctac tcatttgaca
7201 tctggctctt ctagtaatgc ttcttctgcc tccacaaaat tgacaaattt aagctctggc
7261 tcctctcaaa acagaacagc agagtgggta aatcaacaga gaagtcttag ccctttcatg
7321 agtggcgcac ttaacatctc acatgtcacg ccaccctcaa gtagggcttc cagttctggg
7381 acggtctcga ccgtgcccaa ggaagttttg gactcctgga cgtctgcgtt taacacacac
7441 agacagccgc tcttcgcaca cctcagagtg aggggggagt cacgtgttta gtgaaaagaa
7501 ataattggct ataatgtgat ttctttctta atttggctaa tttgtatctt tt
//