Typing tool
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Typing tool
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Complete norovirus genomes
| PQ310251 | GII.17 | |
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| GII.P17 |
ORF1: 1..5106
ORF2: 5087..6703
ORF3: 6703..7482
LOCUS PQ310251 7544 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/NewYork0002/2024/USA
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PQ310251
VERSION PQ310251.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7544)
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 7544)
AUTHORS Ahmetaj,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..7544
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/NewYork0002/2024/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="06-Mar-2024"
/note="genotype: GII.17[P17]"
gene <1..5106
/gene="ORF1"
CDS <1..5106
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XGR29334.1"
/translation="KMASNDASAAVAGKDNNNDNVKSSSDSLFSNMTVTFKKALGARS
KQPPPGETKQTLRPPRPPTPELVKKIPPPPPNGEDEPKVTYKVGEGVSGLPDLTTVAQ
PDAQNTAYSVPPLSQREVGEAREPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAA
ISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDVI
GKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDALATYVRTLDLEEEKARKL
SSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKSGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGPNLPTFNFDRNKVTAFRQLAAENKYGLMDTLRVGNQLKSVK
TLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALHH
LRSARIRYYVKCFQEAIYSILQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDKG
GCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP
EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAK
LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTR
GPNHGDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPR
QESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..996
/gene="ORF1"
/product="p48"
mat_peptide 997..2094
/gene="ORF1"
/product="NTPase"
mat_peptide 2095..2631
/gene="ORF1"
/product="p22"
mat_peptide 2632..3030
/gene="ORF1"
/product="VPg"
mat_peptide 3031..3573
/gene="ORF1"
/product="Pro"
mat_peptide 3574..5103
/gene="ORF1"
/product="RdRp"
gene 5087..6703
/gene="ORF2"
CDS 5087..6703
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XGR29335.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHVQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNQPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSEVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6703..7482
/gene="ORF3"
CDS 6703..7482
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XGR29336.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSVPQSKPAKPKSLGSSSSSSSVYSMSTQLT
SLTSGSSSNASSASTKLTNLSSSSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 aagatggcgt ctaacgacgc ttccgctgcc gttgctggca aagacaacaa caacgacaat
61 gtaaaatctt caagtgacag cttgttttct aacatgactg ttacttttaa gaaagccctc
121 ggggcgcggt ctaagcagcc gcccccggga gaaacaaaac aaacactaag accaccaagg
181 ccgccgacac cggaattggt gaagaagata cccccacctc cccccaatgg cgaggatgaa
241 ccaaaggtaa cgtataaggt gggagaaggt gtgtctgggc tgcccgactt aacaaccgtg
301 gcacaacctg acgcacagaa cacagcctat agtgtccccc cacttagcca gagagaggtc
361 ggcgaagcta gagaaccgtt gcctggctcc attctggaaa tgtgggatgg tgagatctac
421 cactatgggc tgtatgttga gcgggggcat gtgctgggag tgcacaaacc acctgctgca
481 ataagccttg ccaaaattga gttaacaccg ctgtctctct actggagagt ggtctacact
541 ccccagtact tgatagctcc agagaccctc aagaatttaa atggagagac tttcccatac
601 acggcctttg acaacaactg ttatgccttc tgttgttggg ttctagacct caacgactcc
661 tggcttagca gaagaatggt ccaaagaaca accggattct tcaggccgta tcaggactgg
721 aacagaaaac ccttaccaac catggatgaa ccaaaaatca agaaggccgc gaatgctgtt
781 ctgtgtgctc tctcctcact cttcactagg cccatcaaag atgtcattgg aaagcttaaa
841 ccactaaaca ttatgaacat actggcaact tgtgattgga cttttgcggg catagtggaa
901 tccatgatcc ttcttgctga actctttggg gtgttctgga cgcccccaga tgtgtctgca
961 ataattgctc ccttactcgg tgactacgag atgcaaggcc ccgaagacct ggccgtggaa
1021 cttgtgcccg tggtaatggg aggaataggt ttggtgttag gattcaccaa ggaaaagatc
1081 ggcaagatgc tttcatcagc tgcaaccaca ctcagggcct gtaaggatct aggatcttat
1141 gggttggaga tactcaaact ggtcatgaag tggttcttcc ccaagaagga ggaggccaac
1201 gagttagcca tggtgagggc cattgaggat gcagttctgg atttggaggc aatagaaaac
1261 aaccacatga ccactctcct taaggacaaa gacgccctgg ccacatacgt gaggactctt
1321 gacttggaag aagaaaaagc aaggaaacta tcttccaaat cggcgtcgcc tgacatcgtg
1381 ggcacagtaa atgcattatt ggcaagaata gcagccgcca ggtcactggt ccacaaggct
1441 aaggaggagc tctcgagcag acagagacct gttgttgtaa tgatatcagg taggccaggt
1501 ataggaaaga cccatctggc cagagagcta gccaagaagg tcgcgtcaac actgtcaggc
1561 gaccaaagga ttggactgat acccagaaat ggcgtcgacc attgggacgc ctacaaagga
1621 gagcgggtgg ttctgtggga tgactatggc atgagcaacc ctatacagga cgcactgagg
1681 ctccaagaat tggctgacac ctgtcctctg accctaaatt gtgacagaat tgaaaacaaa
1741 ggaaaagtgt tcgacagtga cgccataatc ataacgacca accttgcaaa cccagcacca
1801 ttggattatg tcaactttga ggcttgttcc agacgcatag acttcttggt gtatgcagac
1861 gcacctgaca tcgagaaggc taagcgtgac ttccctggcc aaccagatat gtggaaagac
1921 cattacagac cagacttctc acacattaaa cttcagctcg caccacaggg aggctttgat
1981 aagagtggca acaccccaca tggcaaaggt gtggttaagt ctctgacgat tggttctctg
2041 atcgccaggg cttctggctt gctccatgag agaatggatg aattcgagct ccaaggcccc
2101 aacttaccaa ccttcaattt cgaccgtaac aaagtcaccg ccttcagaca attggcagct
2161 gaaaacaaat acggtcttat ggacacactg agggtcggca accaactgaa aagtgtcaaa
2221 accctggatg agctgaagca ggctataaag aacatcacca tcaagaagtg ccagatagtg
2281 tacaatggat gcacctacac catggaatct gatgggagga acaaggttgt ggttgaaaag
2341 gttcaaaatg caacagtcca aaccaacaat gaacttgcag gagcactcca ccacctgaga
2401 tctgcaagaa taaggtatta tgtcaaatgt ttccaagaag ctatttactc tatactccaa
2461 attgctggtg cagccttcgt caccacacgc atcgtgaggc gcatgaacat ctcaaacctc
2521 tggtcgaagc cacccgtcga agagggtgat gagcctgaag acaaaggggg gtgccccaag
2581 cccagggatg aagatgacct cactattgac tccaaagaca ttaaagcaga aggtaagaag
2641 ggcaagaaca aatctggccg gggcaagaaa cacacagctt tctcatccaa gggcctcagt
2701 gatgaagagt acgatgagta caagagaatc agggaggaga gaaatggcaa gtactcaata
2761 gaagaatacc tccaggatag ggatagatac tatgaagagc ttgccattgc taaggccact
2821 gaggaagact tctgtgaaga ggaggaaatc aaaattcgcc agagaatctt ccggcccacc
2881 aggaagcagc ggaaagagga aagagccacg cttgggctcg tcacaggatc ggaaatcaga
2941 aagaggaacc cagatgattt taagccaaaa ggaaaattgt gggctgatga caacaggagt
3001 gtggactaca atgagaggat agattttgag gctcccccaa gtgtttggtc taggatagtc
3061 aactttggta caggatgggg attctgggtc tccccaagtc tctttataac ttcaacacat
3121 gtcataccaa aaggaatcac tgaggccttt ggagttccca ttaatcaaat tcaaattcac
3181 aaatctggag agttttgccg cttgcggttt ccaaaaccaa tcaggccaga cgtgagtgga
3241 atgatcttgg aagagggtgc ccctgaaggc actgttgttt ccattctcat caagaggacg
3301 acaggggaac tgatgcctct cgcagtcaga atgggaactc atgccacaat gaaaatccaa
3361 ggtagaacgg tgggcggtca aatgggcatg cttctcactg gctcaaacgc caaaagcatg
3421 gacctaggca caacaccagg tgactgtggg tgcccataca tatacaaaag gggcaatgac
3481 ttcgtggtca ttggggtgca cactgcagca gcccgtggag gtaacacggt catatgtgcc
3541 acacagggga gtgaaggcga agccaccctc gaaggaggtg acaacaaggg cacctattgt
3601 ggagccccca tcttgggtcc tggcaacgca ccaaaattga gcacaaaaac aaaattctgg
3661 agatcttcta acgcgccgct cccgccaggc acctatgaac cagcatacct tggtggaaaa
3721 gacccgcgtg tgaagggagg cccatctcta caacaggtta tgagagacca actcaaacct
3781 tttacagagc ccagagggaa gccaccaaaa ccaagtgtct tagaatcagc aaagaagacc
3841 atcattaatg ttctggaaca aaccattgac ccccctgaaa agtggtcata tgcccaagct
3901 tgtgcatccc tcgacaagac aacctccagt ggatacccgc atcacgtccg gaagaatgac
3961 tactggagtg gtgaatcctt cacggggaaa cttgcagacc aggcctcaaa agcaaatctc
4021 atgtatgagg aaggtaagca catgcaacca gtttacaccg cagcactcaa agacgagctc
4081 gtgaaaactg acaaaattta tggcaagatc aagaaaagac tcctgtgggg ctctgaccta
4141 tccaccatga ttcgatgcgc cagggcattt ggtggcctca tggacgagct caaagcaaat
4201 tgtatcacac tccctatcag agttggtatg aacatgaatg aagatggtcc tataatattt
4261 gaaaagcact ccaggtacag gtaccactat gatgctgatt attcccgctg ggattccaca
4321 caacagcggg cagtgctgga agcggcactt gaaatcatgg tgagattttc tgctgagcca
4381 cagttggcac aaatagtggc agaggacctg ctatcaccaa gtgtggttga tgtgggcgat
4441 ttcaaaatta ctattaatga aggcctacca tctggcgtgc cttgcacttc acaatggaat
4501 tctattgccc actggttact caccctatgt gccctgtctg aagtgacagg actaggccct
4561 gacatcatac aagccaactc catgtactct ttctatggtg atgatgagat tgtgagcaca
4621 gacataaaat tagacccaga gaaactgact gcaaaactca aagaatatgg tcttaaaccc
4681 acccggcctg acaagactga ggggccactg gtaattagtg aggacctgaa tgggttgact
4741 ttcctccgcc gaacagtcac ccgcgatcca gcgggttggt ttggaaagtt ggaccaaaac
4801 tccatcctca gacagctgta ctggacaagg ggacccaacc atggagaccc tagtgagact
4861 atgataccac acgcacagag acctgtgcag ctcatggcat tgctaggaga atcctctcta
4921 catggaccct cattttacag caaggttagc aagctggtta tatctgaact taaagaggga
4981 ggaatggatt tttatgtgcc cagacaagag tcaatgttca ggtggatgag gttctcagat
5041 ctaagcacat gggagggcga tcgcaatctg gctcccagtt ttgtgaatga agatggcgtc
5101 gaatgacgcc gctccatcta atgatggtgc tgctggtctc gtaccagagg gcaataacga
5161 gacccttccc ctagaaccag ttgcgggcgc agctatagcc gcacccgtca ctggccaaaa
5221 taatataatt gacccctgga ttagaacaaa ttttgtgcaa gcaccaaatg gagagttcac
5281 agtgtcaccc agaaactctc ctggagaaat tttactaaac ctagagttgg gccctgatct
5341 gaacccttat ttggctcatt tgtcaaggat gtataatgga tatgctggtg gagttgaagt
5401 ccaggttctc ctggcaggga acgcgttcac tgccgggaag atcctcttcg ccgctgtccc
5461 gccaaatttt ccggtggaat tcttaagccc agcccagatt acaatgctcc cacatataat
5521 agtagatgtt aggactcttg aaccaattat gatcccatta cctgatgtta ggaatacatt
5581 cttccactat aataatcagc ccaacagccg catgagatta gtggctatgc tctacacccc
5641 ccttagatct aatggctcag gtgatgatgt tttcactgtt tcttgcaggg ttttgactag
5701 gcctactcct gattttgagt tcacttatct agtgccaccc tctgttgaat ctaagactaa
5761 acccttttct ttacccattc taaccctttc tgagctcaca aattcgaggt tcccggtccc
5821 catcgattcg cttttcaccg cccaaaataa tgtgttgcag gtgcagtgtc aaaatggcag
5881 gtgcacactt gacggtgagc tacaaggcac aacccagttg ctcccatctg gcatctgtgc
5941 gttcagggga cgggtgacag cagaaactga caatcctgac aagtggcacg tgcaactgca
6001 aaaccttaat ggcacaacat atgacccaac tgatgatgtg ccagccccac tgggtacacc
6061 tgacttcaag ggcgtcgtgt ttgggatggc aagccaaaga aatgtgggta acgacgcgcc
6121 cggctcaacc aggtcccatg aggcggtgat ttcgacctac agccccagat ttgttcctaa
6181 attaggctct gtcaatttca aaagcaatga cgatgatttc caattgcaac caacaagatt
6241 cacaccagtg ggcattaatg atgatggcaa ccaaccattc agacaatggg aactaccaga
6301 ttattcaggg gtgcttacct tgaatatgaa ccttgccccc cctgttgctc caaatttccc
6361 tggcgaacaa ttactattct tcagatcttc tgtgccatgt tcaggaggtt acaaccaagg
6421 tattatagat tgccttatcc cccaagaatg gatccaacac ttctaccagg aatcagcacc
6481 ttctcagtca gaagtggccc taatcaggta cgtcaacccc gacacgggtc gtacactgtt
6541 tgaggcaaaa ttgcataggt caggctatat cactgtggct cattctggag actatcctct
6601 tgttgttccg gctaatggat actttagatt tgactcttgg gtaaatcagt tttactcact
6661 cgccccaatg ggaactggga atgggcgaag gagggctcag taatggctgg agcttttatt
6721 gcaggattgg cgggtgacat gctcacgtca tccgtgggct ccctagtgaa cgcaggggca
6781 aacgccatca accaaaagat agactttgaa aacaacaaac aactccagtc tgcttccttt
6841 caacatgata aagagatgct ccaagcgcag gtgaacgcaa ccaagcagct gcaatctgag
6901 atgatagccc taaaacaggg ggttttggcc gcaggcggct tttcccccac tgatgcagcg
6961 aggggggcca tcggtgcacc catgacaaag gtgcttgact ggtctggcac tcgatactgg
7021 gctcccaatt ccacaaagac aactggttat tcggggcaat tcacctcttc acctgtgcac
7081 atgcccagcc cgagtgtccc acaatcaaaa cccgcaaagc ccaagtctct aggttcttct
7141 tcttcttcta gtagtgttta cagtatgtct acccaattaa cttctctaac atctggctct
7201 tctagtaatg cttcttctgc ttctacaaaa ttgacaaatt tgagctccag ctcttctcaa
7261 aacagaacag cagagtgggt gaaccaacag agaagtctca gccctttcat gagtggcgca
7321 ctcaatatct cgcatgtcac gccaccttca agtagggcct ccagttctgg gacggtctca
7381 accgtgccca aagaagtttt ggactcctgg acatctgcat tcaacacacg cagacagccg
7441 ctcttcgcac acctcagagt gaggggggag tcacgtgttt agtgaaaaga aataattggc
7501 tataatatga tttctttaaa atttaaattt ggctaatttg tatc
//