Typing tool
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Typing tool
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Complete norovirus genomes
| PQ310128 | GII.17 | |
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| GII.P17 |
ORF1: 5..5113
ORF2: 5094..6710
ORF3: 6710..7489
LOCUS PQ310128 7504 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/Oregon8013/2024/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ310128
VERSION PQ310128.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7504)
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 7504)
AUTHORS Tsaknaridis,L., Barclay,L., Montmayeur,A.M., Vinje,J. and
Chhabra,P.
TITLE Direct Submission
JOURNAL Submitted (11-SEP-2024) Viral Gastroenteritis Branch, Centers for
Disease Control and Prevention, 1600 Clifton Road NE, Atlanta, GA
30329, USA
COMMENT ##Assembly-Data-START##
Assembly Method :: Geneious v. v. 11.1.2; SPAdes v. v. 3.6
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7504
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/Oregon8013/2024/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="02-Feb-2024"
/note="genotype: GII.17[P17]"
gene 5..5113
/gene="ORF1"
CDS 5..5113
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XGR28061.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTPRPPRPPTPELVKKIPPPPPNGEDEPKVVYRVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLIMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKCV
KTLDELKQAIKNIAIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKTEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEVKIRQRIFRPTRKQRREERTTL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVNYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMFEEGKHMQPVYTAALKDELVKTDKIYGQIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPERLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPNETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 5..1003
/gene="ORF1"
/product="p48"
mat_peptide 1004..2101
/gene="ORF1"
/product="NTPase"
mat_peptide 2102..2638
/gene="ORF1"
/product="p22"
mat_peptide 2639..3037
/gene="ORF1"
/product="VPg"
mat_peptide 3038..3580
/gene="ORF1"
/product="Pro"
mat_peptide 3581..5110
/gene="ORF1"
/product="RdRp"
gene 5094..6710
/gene="ORF2"
CDS 5094..6710
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XGR28062.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLLFRSSVPCSGGYNQGIIDCL
VPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6710..7489
/gene="ORF3"
CDS 6710..7489
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XGR28063.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGILAAGGFSPTDAARGAISAPMTKVLDWSG
TRYWAPNSTKTTSYSGQFTSSPVHMPSPSAPQPKPAKPRSLGSSSSSSSVYSMSTQLT
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa
61 cgacaaggaa aaatcttcaa gtgacagctt gttttctaac atgactgtta cttttaagaa
121 agccctcggg gcgcggtcta agcagccgcc cccgggagaa acgaaacaaa cgccaagacc
181 accaaggcca ccgacaccgg aattggtgaa gaagataccc ccaccccccc ccaatggcga
241 ggatgagcca aaggtagtgt atagggtggg agaaggtgtg tctgggctgc ccgacttaac
301 aaccgtggca caacctgacg cacagaacac agcctatagt gtccccccac ttagccagag
361 agaggtcggc gaagctaaag aaccgttgcc tggctccatt ctggaaatgt gggatggtga
421 gatctaccac tatgggctgt atgttgagcg ggggcatgta ctgggagtgc acaaaccacc
481 tgccgcaata agccttgcca aaattgaatt aacaccgctg tctctctact ggagagtagt
541 ttacactccc cagtacttga tagctccaga gacccttaag aacttaagtg gtgagacttt
601 cccatacacg gcctttgaca acaactgtta tgccttctgt tgttgggttt tagatctcaa
661 cgactcctgg cttagcagaa gaatgatcca aagaacaacc ggattcttca gaccgtacca
721 ggactggaac agaaaacccc tgccaaccat ggatgaacca aaaatcaaaa aggccgcgaa
781 tgctgttctg tgtgctctct cctcactctt cactaggccc atcaaagatg tcattggaaa
841 gcttaaacca ctgaacatta tgaacatact ggcaacttgt gattggactt ttgcgggcat
901 agtggaatcc atgatccttc ttgctgagct ctttggggtg ttctggacgc ccccagatgt
961 gtctgcaata attgctcccc tactcggtga ctacgagatg caaggccccg aagacctggc
1021 cgtggaactt gtgcccgtgg taatgggagg aataggtttg gtgttaggat tcaccaagga
1081 aaagatcggc aagatgcttt catcagctgc gaccacactc agggcttgta aggatctagg
1141 atcttatggg ttggagatac tcaaactgat catgaagtgg ttcttcccta agaaggagga
1201 ggccaacgag ttagccatgg tgagggccat tgaggatgca gttctggatt tagaggcaat
1261 agaaaacaac cacatgacca ctctccttaa ggacaaagac agcctggcca catacatgag
1321 aactcttgac ttggaagaag aaaaagcaag gaaactgtca tccaaatcgg cgtcacctga
1381 catcgtgggc acagtaaacg cattgttggc aaggatagca gccgccaggt cgctggtcca
1441 caaggctaag gaggagctct cgagcagaca gaggcctgtt gttgtaatga tatcaggtag
1501 accaggtata gggaagaccc atctggccag agagctagcc aagaaggttg cgtcaacgct
1561 gtcaggcgat caaaggattg gactaatacc tagaaatggc gtcgatcatt gggacgccta
1621 caaaggagag cgggtggttc tgtgggatga ctatggcatg agtaacccta tacaggacgc
1681 tctgaggctc caagaattgg ctgacacctg tcctctgacc ctaaattgtg acaggattga
1741 aaacaaagga aaagtattcg acagtgacgc cataatcata acaaccaacc ttgcaaaccc
1801 cgcaccactg gattatgtca actttgaggc ttgttccaga cgcatagact tcttggtgta
1861 tgcagacgcg cctgacatcg agaaggctaa gcgtgacttc cctggccaac cagatatgtg
1921 gaaagaccat tacagaccag acttctcaca cattaaactt cagctggcac cacagggagg
1981 ctttgataag aatggcaaca ccccacatgg caaaggtgtg gttaagtctc tgacgattgg
2041 ttctctgatc gccagggctt ctggcttgct ccatgagaga atggacgaat tcgagctcca
2101 aggttctgac ttaccaacct tcaatttcga ccgcaacaaa gtcgccgcct tcagacagtt
2161 ggcagctgaa aacaaatatg gtcttatgga cacactgagg gtcggcaacc aactgaaatg
2221 tgtcaaaacc ctggatgagc tgaagcaggc tataaagaac atcgccatca agaagtgcca
2281 gatagtgtac aatggatgca cctacaccat ggaatctgat ggtaggaata aggttgtggt
2341 tgaaaaggtt caaaatgcaa cagtccaaac caataatgaa cttgcaggag cactccacca
2401 cctgagatct gcaaggataa ggtattatgt caaatgtttc caagaagcta tttattctct
2461 actccaaatt gctggtgcgg ccttcgtcac cacacgcatc gtgaggcgca tgaacatctc
2521 aaacctctgg tcgaagccac ccgtcgaaga gggtgatgag cctgaagaca aaggggggtg
2581 ccccaagccc agggatgaag atgacctcac tattgactcc aaagacatta aaacagaagg
2641 gaagaagggc aagaacaaat ctggccgggg caagaaacac acagctttct catccaaggg
2701 cctcagtgat gaagagtacg atgagtacaa gagaatcagg gaggagagga atggcaaata
2761 ctcaatagag gaatacctcc aggataggga cagatactat gaagagcttg ccattgctaa
2821 ggccactgag gaagacttct gtgaagagga ggaagtcaaa attcgccaga gaatcttccg
2881 gcccaccagg aagcaacgga gagaggaaag aaccacgctc gggcttgtca caggatcgga
2941 aatcagaaag aggaatccag atgactttaa gccaaaagga aagttgtggg ctgatgacaa
3001 cagaagtgtg aactacaatg agaggataga ttttgaggct cccccgagtg tttggtctag
3061 gatagtcaac tttggtacag gatggggatt ctgggtctcc ccaagtctct ttataacttc
3121 aacacatgtc ataccaaaag ggatcactga ggcttttgga gtccccatta accaaattca
3181 aattcacaaa tctggagagt tttgccgctt gcggtttcca aaaccaatca gaccagacgt
3241 gagtggaatg atcttggaag agggtgcccc tgaaggcaca gttgtgtcca ttctcattaa
3301 gaggacaaca ggggaactga tgcctctcgc agtcagaatg ggaactcatg ccacaatgaa
3361 aatccaaggt agaacggtgg gcggtcaaat gggcatgctt ctcactggct caaacgctaa
3421 aagcatggac ctaggcacaa caccaggtga ctgtgggtgc ccatacatat acaaaagggg
3481 caatgacttc gtggtcattg gggtgcacac tgcggcagcc cgtggaggca acacggtcat
3541 atgtgccaca cagggaagtg aaggcgaagc caccctcgaa ggaggtgaca acaagggcac
3601 ctattgtgga gcccccatct tgggacctgg caacgcacca aaattgagca caaaaacaaa
3661 attctggaga tcttctaacg cgccgcttcc tccaggcacc tatgaaccag cataccttgg
3721 tggaaaagac ccgcgtgtga agggaggccc atctctacaa caggttatga gagaccaact
3781 caaacctttt acagagccta gggggaagcc accaaaacca agtgtcctag aatcagcaaa
3841 gaagactatc atcaatgttc tagaacaaac cattgacccc cctgaaaagt ggtcatatgc
3901 ccaagcttgt gcatccctcg acaagacaac ctccagtggg tacccccatc acgtccggaa
3961 gaatgattat tggagtggcg aatccttcac ggggaaactt gcagaccagg cctcaaaagc
4021 aaaccttatg tttgaggaag gcaagcacat gcaaccagtt tacactgcag cactcaaaga
4081 cgagctcgtg aaaactgaca aaatttatgg ccagatcaag aaaagactcc tgtggggctc
4141 tgacctatcc accatgattc gatgcgccag ggcatttggt ggcctcatgg atgagctcaa
4201 agctaattgt atcacactcc ctatcagggt tggtatgaac atgaatgagg atggtcccat
4261 aatatttgaa aagcactcca ggtataggta ccactatgat gctgattact cccgctggga
4321 ttccacacaa cagcgggcag tgctggaagc ggcacttgaa atcatggtga gattttctgc
4381 tgagccacag ttggcacaaa tagtggcaga ggacctgcta tcaccaagtg tggttgatgt
4441 gggcgatttc aaaattacta tcaatgaagg cctaccatct ggcgtgccct gcacttcaca
4501 atggaattcc attgcccact ggttactcac cctgtgtgcc ctgtctgaag taacaggact
4561 aggccctgac atcatacaag ccaactccat gtactctttc tatggtgatg atgaaatagt
4621 gagcacagac ataaaattag acccagagag attgactgca aaactcaaag aatatggtct
4681 taaacccacc cggcctgaca agactgaggg gccattggta attagtgagg acctgaatgg
4741 gttgactttc ctccgccgaa cagtcacccg cgatccagcg ggttggtttg gaaagttgga
4801 ccaaaactcc atcctcaggc agctgtactg gacaagggga cccaaccatg aagaccccaa
4861 tgagaccatg ataccacacg cacagagacc tgtgcagctc atggcactgc taggagagtc
4921 ctccctacat ggaccctcat tttacagcaa ggttagcaag ctggtcatat ctgaacttaa
4981 agagggagga atggattttt atgtgcccag acaagagtca atgttcagat ggatgaggtt
5041 ctcagatcta agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga
5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca
5161 ataacgagac ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg
5221 gccagaacaa tataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag
5281 agttcacagt gtcacccaga aactctcctg gagaaatttt actaaactta gagttgggcc
5341 ctgatttgaa cccttatttg gctcatttgt caaggatgta caatgggtat gctggtggag
5401 ttgaagtcca ggttctcctg gcggggaacg cgttcactgc cgggaagatc ctcttcgccg
5461 ctgtcccgcc aaatttccca gtggaattct taagcccagc ccagattaca atgctcccac
5521 atataatagt agatgttagg actcttgaac caataatgat cccattacct gatgttagga
5581 acacattctt ccactataat aaccagccca acagccgcat gagattagtg gctatgctct
5641 atacccccct tagatctaat ggctcaggtg atgatgtttt cactgtttct tgcagggttt
5701 tgactaggcc cactcctgat tttgagttca cttatctagt gccaccctct gttgaatcta
5761 agactaaacc cttttcctta cccattctaa ccctttctga gctcacaaat tcgaggttcc
5821 cggtccccat tgattcgctt ttcaccgccc agaacaatgt gttgcaggtg cagtgtcaaa
5881 atggcaggtg cacacttgac ggtgagctac aaggcacaac ccagttgctc ccatctggca
5941 tctgtgcgtt cagaggacgg gtgacagcag aaactgacaa tcctgacaag tggcacatgc
6001 aactgcaaaa cctcaatggc acaacatatg acccaactga tgatgtgcca gccccactgg
6061 gtacacctga cttcaagggc gtcgtgtttg gaatggcaag ccaaagaaat gtgggtaacg
6121 atgcgcccgg ctcaaccagg tcccatgagg cggtaatttc aacctacagc cccagattcg
6181 ttccaaaatt aggctctgtc aattttaaaa gtaatgacga tgatttccaa ttgcagccaa
6241 caagattcac accagtgggc attaatgatg atggcgacca cccgttcaga cagtgggaat
6301 tgccagacta ttcaggggtg cttaccttga atatgaacct tgcccccccg gttgctccaa
6361 attttcctgg tgaacaatta ttactcttca gatcttctgt gccatgttca ggaggttaca
6421 accaaggtat tatagattgt cttgtccccc aagaatggat ccaacacttc taccaggaat
6481 cagcaccttc tcagtcagac gtggccctga tcaggtacgt caaccccgac acgggtcgca
6541 cactgtttga ggcaaaattg catagatctg gctatattac tgtggctcac tctggagact
6601 atcctcttgt tgttccggct aatggatact ttagatttga ctcttgggta aatcagtttt
6661 actcactcgc cccaatggga actgggaatg ggcgaaggag ggctcagtaa tggctggagc
6721 tttcattgca ggattggcgg gtgacatgct cacgtcatcc gtgggctccc tggtgaacgc
6781 aggggcaaac gccatcaacc aaaagataga ctttgaaaac aacaaacaac tccagtctgc
6841 ttcctttcaa catgacaaag agatgctcca agcgcaggtg aacgcaacca agcagctgca
6901 atctgagatg atagccctaa aacaggggat tttggccgca ggcggctttt cccccactga
6961 tgcagcgagg ggggccatca gtgcacccat gacaaaggtg cttgactggt ctggcactcg
7021 atattgggct cccaattcca caaagacaac tagttattcg gggcaattca cctcttcacc
7081 tgtgcacatg cccagcccga gtgctccaca gccaaaaccc gcaaagccca ggtctctagg
7141 ttcctcttct tcttctagta gtgtttatag tatgtctacc caattaactt ctctaacatc
7201 tggctcttct agtaatgctt cttctgcttc tacaaaattg acaaatttaa gttccggctc
7261 ctctcaaaac agaacagcag agtgggtgaa ccaacagaga agtctcagcc ctttcatgag
7321 tggcgcactc aatatatcac atgtcacgcc accttcaagt agggcctcta gttctggaac
7381 ggtctcaacc gtgcccaagg aggttttgga ctcctggaca tctgcattca acacacgcag
7441 acagccgctc ttcgcacacc tcagagtgag gggggagtca cgtgtttagt gaaaagaaat
7501 aatt
//