Typing tool
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Typing tool
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Complete norovirus genomes
| PQ308686 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7485
LOCUS PQ308686 7520 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/Franklin0020/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ308686
VERSION PQ308686.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7520)
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 7520)
AUTHORS Brandt,E., 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..7520
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/Franklin0020/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="12-Feb-2023"
/note="genotype: GII.17[P17]"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XGR22278.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTQRPPRPPTPELVKKIPPPPPNGEDEPKIAYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGEAFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANVVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNIAIKKCQIVYNGCTYTVESDGRNKVVVEKVQNATVQTNNELTGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRREERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKVNCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS
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="XGR22279.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRAHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLLFRSSVPCSGGYNQGIIDCL
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="XGR22280.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAISQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGFSGQFTSSPVHMPSPSAPQSKPAKPRPLGSSSSSSSVYSMSTQST
SLTSGSSSNASSASTKLTNLSSGSSRNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttc tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaaaca gccgcccccg ggagaaacaa aacaaacaca aagaccacca
181 aggccaccga caccggaatt ggtgaagaag atacccccac ccccccccaa tggtgaggat
241 gaaccaaaga tagcgtacaa ggtgggagaa ggtgtgtctg ggctgcccga cttgacaacc
301 gtggcacaac ctgacgcaca gaacacagcc tacagtgtcc ccccacttag ccagagagag
361 gtcggcgaag ctaaagaacc gttgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg ggctgtatgt tgagcggggg catgtactgg gagtgcacaa accaccagcc
481 gcaataagcc ttgccaagat cgaattaaca ccgctgtctc tctactggag agtggtttac
541 actccccaat atttgatagc tccagagacc cttaagaatt taaatggaga agctttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttttaga cctcaacgac
661 tcctggctta gcagaagaat gatccaaaga acaactggat tcttcagacc gtatcaggac
721 tggaacagaa aacccttgcc aaccatggat gaaccaaaaa tcaagaaggc cgcgaatgtt
781 gttctgtgtg ctctctcctc actcttcact aggcccatca aagacgtcat tggaaagctc
841 aaaccactga acattatgaa catactggca acttgtgatt ggacttttgc gggcatagtg
901 gaatccatga tccttcttgc tgagctcttt ggggtgttct ggacgccccc agatgtgtct
961 gcaatgattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtagtaat gggaggaata ggtttggtgt taggattcac caaggaaaag
1081 atcggcaaga tgctttcatc agctgcgacc acactcaggg cctgtaagga tctaggatct
1141 tatgggttgg agatactcaa actggtcatg aagtggttct tccccaagaa ggaggaggcc
1201 aacgagttag ccatggtgag ggccattgag gatgcagttc tggatttgga ggcaatagaa
1261 aacaaccaca tgaccactct ccttaaggac aaagatagcc tggccacata catgaggact
1321 cttgacttgg aagaagaaaa agcaaggaaa ctgtcatcca aatcggcgtc acctgacatc
1381 gtgggcacag taaacgcatt attggcaagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacagagg cctgttgttg taatgatatc aggtaggcca
1501 ggtataggaa agacccatct ggccagagag ctagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact gatacctaga aacggcgtcg accattggga cgcctacaaa
1621 ggagagcggg tggttctgtg ggatgactat ggcatgagca accctataca ggacgcactg
1681 agacttcaag aattggctga cacctgtcct ctgaccctaa attgtgacag gattgaaaac
1741 aaaggaaaag tgttcgacag tgacgccata attataacaa ccaacctcgc aaacccagca
1801 ccactggatt atgtcaactt tgaggcttgt tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acatcgaaaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gatcagactt ctcacacatt aaacttcagc tggcaccaca gggaggcttt
1981 gacaagaatg gcaacacccc acatggcaaa ggtgtggtta agtctctgac gattggttct
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg atgaatttga gctccaaggc
2101 tctgacttac caaccttcaa tttcgaccgt aacaaagtcg ccgccttcag acaattggca
2161 gctgaaaaca aatatggtct tatggacaca ctgagggtcg gcaatcaact gaaaagtgtc
2221 aaaaccctgg atgagctgaa gcaggctata aagaacatcg ccatcaagaa gtgccagata
2281 gtgtacaatg gatgcaccta caccgtggaa tctgatggga ggaacaaggt tgtggttgaa
2341 aaggttcaaa atgcaacagt ccaaaccaac aatgaactta caggagcact ccaccacctg
2401 agatctgcaa ggataaggta ttatgttaaa tgtttccaag aagctattta ctctctactc
2461 caaattgctg 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 agaggaatgg caaatactca
2761 attgaagaat acctccagga cagggataga tactatgaag agcttgccat tgctaaggcc
2821 actgaggaag acttctgtga agaggaggaa ataaaaattc gccagagaat cttccggccc
2881 accaggaagc aacggagaga ggaaagagcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga acccagatga ctttaagcca aaaggaaaac tttgggctga tgacaacaga
3001 agtgtagact acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gtacaggatg gggattctgg gtctccccaa gtctctttat aacttcaaca
3121 catgtcatac caaaaggaat cactgaggcc tttggagttc ccattaacca aattcaaatt
3181 cacaaatctg gagagttttg ccgcttgcgg tttccaaaac caatcaggcc agacgtgagt
3241 ggaatgatct tggaagaggg tgcccctgag 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 tgagcacaaa aacaaaattc
3661 tggaggtctt ctaacgcgcc gcttcctcca ggtacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg aggcccatct ctacaacaag ttatgagaga ccaacttaaa
3781 ccttttacag agccaagagg gaagccacca aaaccaagtg tcctagaatc agcaaagaag
3841 accatcatta atgttctgga gcaaaccatt gacccccctg aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcatcacgt ccggaagaat
3961 gactattgga gtggtgaatc cttcacgggg aaacttgcag accaggcctc aaaagcaaac
4021 cttatgtatg aggaaggcaa gcatatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaagat ttatggcaag atcaagaaaa gactcctgtg gggctctgac
4141 ctatctacca tgattcgatg cgccagggca tttggtggcc tcatggacga gctcaaagta
4201 aattgtatca cactccctgt cagagttggt atgaacatga atgaagatgg tcccataata
4261 tttgagaagc actccaggta caggtaccac tatgatgctg attactcccg ctgggattcc
4321 acacaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagttgg cacaaatagt ggcagaggac ctgctatcac caagtgtggt tgatgtgggc
4441 gatttcaaaa ttgttatcaa tgaaggccta ccatctggcg tgccttgcac ttcacagtgg
4501 aactctattg cccactggtt actcaccctg tgtgccctgt ctgaagtaac aggactaggc
4561 cctgacatca tacaagccaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattagaccc agagaaattg actgcaaaac tcaaagaata tggtcttaaa
4681 cccacccggc ctgacaagac tgaggggcca ctggtaatta gtgaggacct gaatgggttg
4741 acttttctcc gccgaacagt cacccgcgat ccagcgggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca aggggaccca accatgaaga ccccagtgag
4861 actatgatac cacacgcaca gagacctgtg caactcatgg cactgctagg agagtcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaagctgg tcatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcaggtggat gaggttctca
5041 gatctaagca catgggaggg cgatcgcaat ctggctccca gctttgtgaa tgaagatggc
5101 gtcgaatgac gccgctccat ctaatgatgg tgctgctggt ctcgtaccag agggcaataa
5161 cgagaccctt cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggcca
5221 aaacaatata attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt
5281 tacagtgtca cccagaaact ctcctggaga aattttacta aacctagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtacgctg gtggagttga
5401 agtccaggtt ctcctggcag ggaacgcgtt cactgccggg aagatcctct tcgccgctgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag atcacaatgc tcccacatat
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ttacctgatg ttaggaacac
5581 attcttccac tataacaacc agcccaacag ccgcatgaga ttagtggcta tgctctacac
5641 cccccttaga tctaatggct caggtgatga tgttttcact gtttcttgca gggttttgac
5701 tagacccact cctgattttg agttcactta cttagtacca ccctctgttg aatctaagac
5761 taagcccttt tccttaccca ttttaaccct ttctgagctt acaaattcga ggttcccggt
5821 ccccattgat tcgcttttca ccgcccagaa caatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca cttgacggtg agctacaagg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcaga gggcgggtga cagcagaaac tgacaatcct gataagtggc acatgcaact
6001 gcaaaacctc aatggcacga cgtatgaccc aactgatgat gtgccagccc cgctgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggcaagccaa agaaatgtgg gtaacgatgc
6121 gcccggctca accagggctc atgaggcggt gatttcaacc tacagcccca gatttgttcc
6181 caaattaggc tctgtcaatt ttaaaagtaa tgatgatgat tttcaattgc agccaacaag
6241 attcacacca gtgggcatca atgatgatgg caaccacccg ttcagacaat gggaactgcc
6301 agactattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggtgaa caattattac tcttcagatc ttccgtgcca tgttcaggag gttacaacca
6421 aggtattata gattgtctta tcccccaaga atggatccaa cacttctacc aggaatcagc
6481 accttctcag tcagacgttg ccctgatcag gtacgtcaac cctgacacgg gtcgcacact
6541 gtttgaggca aaattgcaca gatctggcta tatcactgtg gctcactctg gagactatcc
6601 tcttgttgtt ccggctaatg gatactttag attcgactct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggagctttc
6721 attgcaggtt tggcgggtga catgctcacg tcatccgtgg gctccctggt gaacgcaggg
6781 gcaaacgcca tcagccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 tttcaacatg ataaagagat gctccaagcg caggtaaatg caaccaagca gctgcaatct
6901 gagatgatag ccctaaaaca aggggtattg gccgcaggcg gcttttcccc cactgatgca
6961 gcgagggggg ccatcggtgc acccatgaca aaggtgcttg actggtctgg cactcgatat
7021 tgggctccca attccacaaa aacaactggt ttttcggggc aattcacctc ttcacctgtg
7081 cacatgccca gcccgagtgc tccacaatca aagcccgcaa agcccagacc tctaggttct
7141 tcttcttctt ctagtagtgt ttatagtatg tctacccaat caacttctct aacatctggc
7201 tcttctagta atgcttcttc tgcttctaca aaattgacaa atttaagctc tggctcctct
7261 cgaaacagga cagcagagtg ggtgaaccaa cagagaagtc tcagcccttt catgagtggc
7321 gcacttaata tctcacatgt cacgccacct tcaagtaggg cctccagttc tgggacggtc
7381 tcaaccgtgc ccaaggaagt tttggactcc tggacatctg cattcaacac acgcagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt
7501 ggctataata tgatttcttt
//