Typing tool
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Typing tool
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Complete norovirus genomes
| PQ308685 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6706
ORF3: 6706..7485
LOCUS PQ308685 7520 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/Maimi0015/2023/USA
nonstructural polyprotein (ORF1), VP1 (ORF2), and VP2 (ORF3) genes,
complete cds.
ACCESSION PQ308685
VERSION PQ308685.1
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]/Maimi0015/2023/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="08-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="XGR22275.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTQRPPRPPTPELVKKIPPPPPNGEDEPKVAYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGEAFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYSGCTYTMESDGRNKVVVEKVQNATVQTNNELTGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQKIFRPTRKQRREERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPRPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPVRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIVINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGALVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
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="XGR22276.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRAHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNHPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
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="XGR22277.1"
/translation="MAGAFIAGLAGDILTSSVGSLVNAGANAISQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSAPQSKPPKSRSLGSSSPSSSVYSMSTQST
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gtaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt tctaacatga ctgttacttt taagaaagcc
121 ctcggggcgc ggtctaaaca gccgcccccg ggagaaacaa aacaaacaca aagaccacca
181 aggccaccga caccggaatt ggtgaaaaag atacccccac ccccccccaa tggcgaggat
241 gaaccaaaag tagcgtataa ggtgggagaa ggtgtgtctg ggctgcccga cttgacaacc
301 gtggcgcaac ctgacgcaca gaacacagcc tacagtgtcc ccccacttag ccagagagag
361 gtcggcgaag ctaaagaacc gttgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg ggctgtatgt tgagcggggg catgtactgg gagtgcacaa accacctgcc
481 gcaataagcc ttgccaaaat tgaattaaca ccgctgtctc tctactggag agtggtttac
541 actccccaat atttgatagc tccagagacc cttaagaatt taaatggaga ggctttccca
601 tacacggcct ttgacaacaa ctgttatgcc ttctgttgtt gggttttaga cctcaacgac
661 tcttggctta gcagaagaat gatccaaaga acaactggat tcttcagacc gtatcaggac
721 tggaacagaa aacccttgcc aaccatggat gaaccaaaaa tcaagaaagc cgcgaatgct
781 gttctgtgtg ctctctcctc actcttcact aggcccatca aagatgtcat tggaaagctc
841 aaaccactga acattatgaa catactggca acttgtgatt ggacttttgc gggcatagtg
901 gaatccatga tccttcttgc tgagctcttt ggggtgttct ggacgccccc agatgtgtct
961 gcaatgattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtaat 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 aaagacagcc 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 agactcatct ggccagagag ttagccaaga aggttgcgtc aacactgtca
1561 ggcgaccaaa ggattggact gatacctaga aatggcgtcg accattggga cgcctacaaa
1621 ggagagcggg tggttctgtg ggatgactat ggcatgagca accctataca ggacgcactg
1681 aggcttcaag aattggctga cacctgtcct ctgaccctaa attgtgacag gattgaaaac
1741 aaaggaaaag tgttcgacag tgacgccata attataacaa ccaacctcgc aaacccagca
1801 ccactggatt atgtcaactt tgaggcttgt tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acatcgagaa ggctaagcgt gacttccctg gccaaccaga tatgtggaaa
1921 gaccattaca gaccagactt ctcacacatc aaacttcagc tggcaccaca gggaggcttt
1981 gataagaatg gcaacacccc acatggcaaa ggtgtagtta agtctctgac gattggttca
2041 ctgatcgcca gggcttctgg cttgctccat gagagaatgg atgaatttga gctccaaggc
2101 tctgacttac caaccttcaa tttcgaccgt aataaagtcg ccgccttcag acaattggca
2161 gctgaaaaca aatatggtct tatggacaca ctgagggtcg gcaaccaact gaaaagtgtc
2221 aaaaccctgg atgagctgaa gcaggctata aagaacatca ccatcaagaa gtgccagata
2281 gtgtacagtg gatgcaccta caccatggaa tctgatggga ggaacaaggt tgtggttgaa
2341 aaggttcaaa atgcaacagt ccaaaccaac aatgaactta caggagcact ccaccacctg
2401 agatctgcaa ggataaggta ttatgttaaa tgtttccaag aagctattta ctctctactc
2461 caaattgctg gtgcagcctt cgtcaccaca cgcatcgtga ggcgcatgaa catctcaaat
2521 ctctggtcga agccacccgt cgaagagggt gatgagcctg aagacaaagg ggggtgcccc
2581 aaacccaggg atgaagatga cctcactatt gactctaaag acattaaagc agaagggaag
2641 aagggcaaga acaaatctgg tcggggcaag aaacacacag ctttctcatc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagggagg aaaggaatgg caaatactca
2761 attgaagaat acctccagga cagggataga tactatgaag agcttgccat tgctaaggct
2821 actgaggaag acttctgtga agaggaggaa atcaaaattc gccagaaaat cttccggccc
2881 accaggaagc aacggagaga ggaaagagcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagga acccagatga ctttaagcca aaaggaaaat tgtgggctga tgacaacaga
3001 agtgtggact acaatgagag gatagacttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gcacaggatg gggattctgg gtctccccaa gtctctttat aacttcaaca
3121 catgtcatac caaaaggaat cactgaggcc tttggagttc 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 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 taagcacaaa aacaaaattc
3661 tggagatctt ccaacgcgcc gctgcctcca ggtacctatg aaccagcata ccttggtgga
3721 aaagacccgc gtgtgaaggg gggcccatct ctacaacagg ttatgagaga ccaacttaaa
3781 ccttttacag agccaagagg gaagccacca agaccaagtg tcctagaatc agcaaagaag
3841 accatcatta atgttctgga gcaaaccatt gaccctcctg aaaagtggtc atacgcccaa
3901 gcttgtgcat ccctcgacaa gacaacttcc agtggatacc cgcatcacgt ccggaagaat
3961 gactattgga gtggtgaatc cttcacgggg aaacttgcag accaggcctc aaaagcaaac
4021 cttatgtatg aggaaggcaa gcacatgcaa ccggtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaag atcaagaaaa gactcctgtg gggatctgac
4141 ctatctacca tgattcgatg cgccagggca tttggtggcc tcatggatga gctcaaagca
4201 aattgtatca cactccctgt cagagttggt atgaacatga atgaagatgg tcccataata
4261 tttgaaaagc actccaggta caggtaccac tatgatgctg attactcccg ctgggattcc
4321 acacaacaac gggcggtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagttgg cacaaatagt ggcagaggac ctgctatcac caagtgtggt tgatgtgggc
4441 gatttcaaaa ttgttatcaa tgaaggccta ccatctggcg tgccttgcac ttcacaatgg
4501 aactctattg cccactggtt actcaccctg tgtgccctgt ctgaagtaac aggactaggc
4561 cctgacatca tacaagccaa ctccatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattagaccc agagaaattg actgcaaaac tcaaagaata tggtcttaaa
4681 cccacccgac ctgacaagac tgagggggca ctggtaatta gtgaggacct gaatgggttg
4741 actttccttc gccgaacagt cacccgcgat ccagcgggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca aggggaccca accatgaaga ccccagtgag
4861 actatgatac cacacgcaca gagacctgtg cagctcatgg cactgctagg agagtcctcc
4921 ctacatgggc cctcatttta cagcaaggtt agcaagctgg tcatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcaggtggat 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 atggagagtt
5281 cacagtgtca cccagaaact ctcctggaga aattttacta aacctagagt tgggccctga
5341 tttgaaccct tatttggctc atttgtcaag gatgtacaat gggtacgctg gtggagttga
5401 agtccaggtt ctcctggcag ggaacgcgtt cactgccggg aagatcctct tcgccgctgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag attacaatgc tcccacatat
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ctacctgatg ttaggaacac
5581 attcttccat tataacaacc agcccaacag ccgcatgaga ctagtggcta tgctctatac
5641 cccccttaga tctaatggct caggtgatga tgttttcact gtttcttgca gagttttgac
5701 tagacctact cctgattttg agttcactta tctagtacca ccctctgttg aatctaagac
5761 taagcctttt tccttaccca ttttaaccct ttctgagctc acaaattcga ggttcccggt
5821 ccccattgat tcgcttttca ccgcccagaa taatgtgttg caggtgcagt gtcaaaatgg
5881 caggtgcaca ctcgacggtg agctacaggg cacaacccag ttgctcccat ctggcatctg
5941 tgcgttcaga ggacgggtga cagcagaaac tgacaatcct gataagtggc acatgcaact
6001 gcaaaacctc aatggcacaa cgtatgaccc aactgatgat gtgccagccc cactgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggcaagccaa agaaatgtgg gcaacgatgc
6121 gcccggctca accagggctc atgaggcggt gatttcaacc tacagcccca gatttgttcc
6181 caaattaggc tctgtcaatt ttaaaagtaa tgacgatgat ttccaattgc agccaacaag
6241 attcacacca gtgggcatca atgatgatgg caaccacccg ttcagacaat gggaactgcc
6301 agactattca ggggtgctta ccttgaatat gaaccttgcc cccccggttg ctccaaattt
6361 ccctggtgaa caattattat tcttcagatc ttccgtgcca tgttcaggag gttacaacca
6421 aggtattata gattgcctta tcccccaaga atggatccaa catttctacc aggaatcagc
6481 accttctcag tcagacgtgg ccctgatcag gtacgtcaac cctgacacgg gtcgcacatt
6541 gtttgaggca aaattgcaca gatctggcta tatcactgtg gctcactctg gagactaccc
6601 tcttgttgtt ccggctaatg gatactttag atttgactct tgggtaaatc agttttactc
6661 actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc tggagctttc
6721 attgcaggat tggcgggtga catactcacg tcatccgtgg gctccctggt gaacgcaggg
6781 gcaaacgcca tcagccaaaa gatagacttt gaaaacaaca aacaactcca gtctgcttcc
6841 tttcaacatg ataaagagat gctccaagcg caggtgaatg caaccaagca gctgcaatct
6901 gagatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc cactgatgca
6961 gcgagggggg ccatcggtgc acccatgaca aaggtgcttg actggtctgg cactcgatat
7021 tgggctccca attccacaaa gacaactggt tattcggggc aatttacctc ttcacctgtg
7081 cacatgccca gcccgagtgc tccacaatca aaacccccaa agtccagatc tctaggttct
7141 tcttctcctt ctagtagtgt ttatagtatg tctacccaat caacttctct aacatctggc
7201 tcttctagta atgcttcttc tgcttctaca aagttgacaa atttaagctc tggctcttct
7261 caaaacagga cagcagagtg ggtgaaccaa cagagaagtc tcagcccttt catgagtggc
7321 gcactcaaca tctcacatgt cacgccacct tcaagtaggg cctccagttc tgggacggtc
7381 tcaaccgtgc ccaaggaagt tttggactcc tggacatctg cattcaacac acgcagacag
7441 ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa agaaataatt
7501 ggctataata tgatttcttt
//