Typing tool
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Typing tool
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Complete norovirus genomes
| PQ308689 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7485
LOCUS PQ308689 7520 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/Franklin0095/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ308689
VERSION PQ308689.1
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]/Franklin0095/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="19-Nov-2023"
/note="genotype: GII.17[P17]"
gene <1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XGR22287.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTPRPPRPPTPELVKKIPPPPPNGEDEPKVVYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLNQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLSGESFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLIMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRSDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDGLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRREERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKETIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGTIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
KGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
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="XGR22288.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGDHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLLFRSSVPCSGGYNQGIMDCL
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="XGR22289.1"
/translation="MAGTFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGILAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKITGYSGQFTSSPVHMPIPSAPQSKPAKPRSLGSSPSSSSVYSMSTQLT
SLISGSSSNASSVSTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISYVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaagca gccgcccccg ggagaaacga aacaaacacc aagaccacca
181 aggccaccga caccggaatt ggtgaagaag atacctccac ccccccctaa tggcgaggat
241 gaaccaaagg tagtgtataa ggtgggagaa ggtgtgtctg ggctgcccga cttaacaacc
301 gtggcacaac ctgacgcaca gaacacagcc tatagtgtcc ccccacttaa ccagagagag
361 gtcggcgaag ctaaagaacc gttgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccattatg ggctgtatgt tgagcggggg catgtactgg gagtgcacaa accacctgcc
481 gcaataagcc ttgccaaaat tgaactaaca ccgctgtctc tctactggag agtggtttac
541 actccccagt acttgatagc tccagagacc cttaagaatt taagtggaga gtctttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttttgga tctcaacgac
661 tcctggctta gcagaagaat gatccaaaga acaaccggat tcttcagacc gtatcaggac
721 tggaacagaa aacccttgcc aaccatggat gaaccaaaaa tcaaaaaggc cgcgaatgct
781 gttctgtgtg ctctctcctc actcttcact aggcccatca aagatgtcat tggaaagctt
841 aaaccactga acattatgaa catactagca acttgtgatt ggacttttgc gggcatagtg
901 gaatccatga tccttcttgc tgagctcttt ggggtgttct ggacgccccc agatgtgtct
961 gcaataattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtaat gggaggaata ggtttggtgt taggattcac caaggaaaag
1081 atcggcaaga tgctttcatc agctgcgacc acactcaggg cctgtaagga tctagggtct
1141 tatgggttgg agatactcaa actgatcatg aagtggttct tccccaagaa ggaggaggcc
1201 aacgagctag ccatggtgag ggccattgag gatgcagttc tggatttgga ggcaatagaa
1261 aacaaccaca tgaccactct ccttaaggac aaagacagcc tggccacata catgagaact
1321 cttgacttgg aagaagaaaa agcaaggaaa ctgtcatcca aatcggcgtc acctgacatc
1381 gtgggcacag taaacgcatt attggcaagg atagcagccg ccaggtcgct ggtccacaag
1441 gctaaggagg agctctcgag cagacagagg cctgttgttg tgatgatatc aggtaggcca
1501 ggtataggaa agacccatct ggccagagag ctagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact gatacctaga aatggcgtcg accattggga cgcctacaaa
1621 ggagagcggg tggttctgtg ggatgactat ggcatgagta accctataca ggacgctctg
1681 aggctccaag aattggctga cacctgtcct ctgaccctaa attgtgacag gattgaaaac
1741 aaaggaaaag tgttcgacag tgacgccata atcataacaa ccaaccttgc aaacccagca
1801 ccactggatt atgtcaactt tgaggcttgt tccagacgca tagacttctt ggtgtatgca
1861 gacgcgcctg acatcgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gatcagactt ctcacacatt aaacttcagc tggcaccaca gggaggcttt
1981 gataagaatg gcaacacccc acatggcaaa ggtgtggtta agtctctgac gattggttct
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg acgaattcga gctccaaggt
2101 tctgacttac caaccttcaa tttcgaccgt aacaaagtcg ccgccttcag acaattggca
2161 gctgaaaaca aatatggtct tatggacaca ctgagggtcg gcaaccaact gaaaagtgtc
2221 aaaaccctgg atgaactgaa gcaggctata aagaacatca ccatcaagaa gtgccagata
2281 gtgtacaatg gatgcaccta caccatggaa tctgacggga ggaacaaggt tgtggttgaa
2341 aaggttcaaa atgcaacagt ccaaaccaat aatgaacttg caggagcact ccaccacctg
2401 agatctgcaa ggataaggta ttatgtcaaa tgtttccaag aagctattta ctctctactc
2461 caaattgctg gtgcggcctt cgtcaccaca cgcatcgtga ggcgcatgaa catctcaaac
2521 ctctggtcga agccacccgt cgaagagggt gatgagcctg aagacaaagg ggggtgcccc
2581 aagcccaggg atgaagatgg cctcactatt gactccaaag acattaaagc agaagggaag
2641 aagggcaaga acaaatctgg ccggggcaag aaacacacag ctttctcatc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagggagg agaggaatgg caaatactca
2761 atagaggaat acctccagga tagggataga tactatgaag aacttgccat tgctaaggcc
2821 actgaggaag acttctgtga agaggaggaa atcaaaattc gccagagaat cttccggccc
2881 accaggaagc aacggagaga ggaaagagcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga atccagatga ctttaagcca aaaggaaagt tgtgggctga tgacaacaga
3001 agtgtggact acaatgagag gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gcacaggatg gggattctgg gtctccccga gtctcttcat aacttcaaca
3121 catgtcatac caaaaggaat cactgaggct tttggagtcc ccattaacca aattcaaatt
3181 cacaaatctg gagagttttg ccgcttgcgg tttccaaaac caatcaggcc agacgtgagt
3241 ggaatgatct tggaagaggg tgcccctgaa ggcactgttg tgtccattct catcaagagg
3301 acaacagggg aactgatgcc tctcgcagtt agaatgggaa ctcatgccac aatgaaaatc
3361 caaggtagaa cggtgggcgg 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 tggagatctt ccaacgcgcc gcttcctcca ggcacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg aggcccatct ctacaacagg ttatgagaga ccaactcaaa
3781 ccttttacag agcccagagg gaagccacca aaaccaagtg tcctagaatc agcaaaggag
3841 accatcatca atgttctaga acaaaccatt gacccccctg aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcatcacgt ccggaagaat
3961 gattattgga gtggcgaatc attcacgggg aaacttgcag accaggcctc aaaagcaaac
4021 cttatgtatg aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgataaaat ttatggcacg atcaagaaaa gactcctgtg gggctctgac
4141 ctatccacca tgattcgatg cgccagggca tttggtggcc tcatggatga gctcaaagct
4201 aattgtatca cactccccat cagagttggt atgaacatga atgaggatgg tcccataata
4261 tttgaaaagc actccaggta caggtaccac tatgatgctg attactcccg ctgggattcc
4321 acacaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagttgg cacaaatagt ggcagaggac ctgctatcac caagtgtggt tgatgtgggc
4441 gatttcaaaa ttgctatcaa tgaaggccta ccatctggcg tgccctgcac ttcacaatgg
4501 aattctattg cccactggtt actcaccctg tgtgccctgt ctgaagtaac aggactaggc
4561 cctgacatca tacaagccaa ctccatgtac tctttctatg gtgatgatga gatagtgagc
4621 acagacataa aattagaccc agagaaattg actgcaaaac tcaaagaata tggccttaaa
4681 cccacccggc ctgacaagac tgaggggcca ctggtgatta gtgaggacct gaatgggttg
4741 actttcctcc gccgaacagt cacccgcgat ccagcgggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca aagggaccca accatgaaga ccccagtgag
4861 accatgatac cacacgcaca gagacctgtg cagctcatgg cactgctagg agagtcctcc
4921 ctacatggac cctcatttta cagcaaggtt agcaagctgg tcatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcagatggat 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 acggagagtt
5281 cacagtgtca cccagaaact ctcctggaga aattttacta aacctagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtatgctg gtggagttga
5401 agtccaggtt ctcctggcgg ggaacgcgtt cactgccggg aagatcctct tcgccgctgt
5461 cccgccaaat ttcccagtgg aattcttaag tccagcccag attacaatgc tcccacatat
5521 aatagtagat gttaggactc ttgaaccaat aatgatccca ttacctgatg ttaggaacac
5581 attcttccac tataataacc agcccaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccccttaga tctaatggct caggtgatga tgttttcact gtttcttgca gggttttgac
5701 taggcccact cctgattttg agttcactta tctagtgcca ccctctgttg aatctaagac
5761 taagcccttt tccttaccca ttctaaccct ttctgagctc acaaattcga ggttcccggt
5821 ccccattgat tcgcttttca ccgcccagaa caatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca cttgacggtg agctacaagg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcaga ggacgggtga cagcagaaac tgacaatcct gacaagtggc acatgcaact
6001 gcaaaacctc aatggcacaa catatgaccc aactgatgat gtgccagccc cactgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggcaagccaa aggaatgtgg gtaacgatgc
6121 gcccggctca accaggtccc atgaggcggt aatttcaacc tacagcccca gatttgttcc
6181 aaaattaggc tctgtcaatt ttaaaagtaa tgacgatgat ttccaattgc agccaacaag
6241 attcacacca gtgggcatta atgatgatgg cgaccacccg ttcagacaat gggaattgcc
6301 agactattca ggggtgctta ccttgaacat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggtgaa caattattac tcttcagatc ttctgtacca tgttcaggag gttacaacca
6421 aggtattatg gattgtctta tcccccaaga atggatccaa cacttctacc aggaatcagc
6481 accttctcag tcagacgtgg ccctgatcag gtacgtcaac cccgacacgg gtcgcacact
6541 gtttgaggca aaattgcata gatctggcta tatcactgtg gctcactctg gggactatcc
6601 tcttgttgtt ccggctaatg gatattttag atttgactct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggaactttc
6721 attgcaggac tggcgggtga catgctcacg tcatccgtgg gctccctggt gaacgcaggg
6781 gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 tttcaacatg acaaagagat gctccaagcg caggtgaatg caaccaagca gctgcaatct
6901 gagatgatag ccctaaaaca ggggattttg gccgcaggcg gcttttcccc cactgatgca
6961 gcgagggggg ccatcggtgc acccatgaca aaggtgcttg actggtctgg cactcgatat
7021 tgggctccca attccacaaa gataactggt tattcggggc aattcacctc ttcacctgtg
7081 cacatgccca tcccgagtgc tccacaatca aaacccgcaa agcccaggtc tctaggttcc
7141 tctccttctt ctagtagtgt ttatagtatg tctacccaat taacttctct aatatctggc
7201 tcttctagta atgcttcttc tgtttctaca aaattgacaa atttaagctc cggctcctct
7261 caaaacagaa cagcagagtg ggtgaaccaa cagagaagtc tcagcccttt catgagtggc
7321 gcactcaata tatcatatgt cacgccacct tcaagtaggg cctccagttc tgggacggtc
7381 tcaaccgtgc ccaaggaggt tttggactcc tggacatctg catttaacac acgcagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt
7501 ggctataata tgatttcttt
//