Typing tool
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Typing tool
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Complete norovirus genomes
| PQ310354 | GII.17 | |
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| GII.P17 |
ORF1: 1..5107
ORF2: 5088..6704
ORF3: 6704..7483
LOCUS PQ310354 7554 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/Boone0006/2024/USA
nonstructural polyprotein (ORF1) gene, partial cds; and VP1 (ORF2)
and VP2 (ORF3) genes, complete cds.
ACCESSION PQ310354
VERSION PQ310354.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7554)
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 7554)
AUTHORS Popowich,M., 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..7554
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/Boone0006/2024/USA"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="USA"
/collection_date="10-Feb-2024"
/note="genotype: GII.17[P17]"
gene <1..5107
/gene="ORF1"
CDS <1..5107
/gene="ORF1"
/codon_start=2
/product="nonstructural polyprotein"
/protein_id="XGR29340.1"
/translation="KMASNDASAAVAGKNNNNDNVKSSSDSLFSNMTVTFKKALGARS
KQPPPEETKQTLRPPRPPTPELVKKIPPPPPNGEDEPKVTYKVGEGVSGLPDLTTVAQ
PDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPAA
ISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGETFPYTAFDNNCYAFCCWVLDLN
DSWLSRRMVQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDVI
GKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQGP
EDLAVELVPVVMGGIGLVLGFTKEKVGKMLSSAATTLRACKDLGSYGLEILKLVMKWF
FPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDALATYMRTLDLEEEKARKL
SSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLAR
ELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELAD
TCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPDI
EKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKSGNTPHGKGVVKSLTIGSLIA
RASGLLHERMDEFELQGPNLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSVK
TLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQINNELAGALHH
LRSARIRYYVKCFQEAIYSILQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDKG
GCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREER
NGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATLG
LVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFWV
SPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGAP
EGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTTP
GDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAPI
LGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPFT
EPRGKPPKPGVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKND
YWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWGS
DLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYSR
WDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGVP
CTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTAK
LKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWTR
GPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVPR
QESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide <1..997
/gene="ORF1"
/product="p48"
mat_peptide 998..2095
/gene="ORF1"
/product="NTPase"
mat_peptide 2096..2632
/gene="ORF1"
/product="p22"
mat_peptide 2633..3031
/gene="ORF1"
/product="VPg"
mat_peptide 3032..3574
/gene="ORF1"
/product="Pro"
mat_peptide 3575..5104
/gene="ORF1"
/product="RdRp"
gene 5088..6704
/gene="ORF2"
CDS 5088..6704
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XGR29341.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQSNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNTDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNQPFRQWELPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSEVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6704..7483
/gene="ORF3"
CDS 6704..7483
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XGR29342.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSVPQSKPAKPKSLGSSSSSSSVYSMSTQLT
SLTSGSSSNASSASTKLTNLSSGSPQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRV"
ORIGIN
1 gaagatggcg tctaacgacg cttccgctgc cgttgctggc aaaaacaaca acaacgacaa
61 tgtaaaatct tcaagtgaca gcttgttttc taacatgact gttactttta agaaagccct
121 cggggcgcgg tctaagcagc cgcccccgga agaaacaaaa caaacactaa gaccaccaag
181 gccgccgaca ccggaattgg tgaagaagat acccccaccc ccccccaatg gcgaggatga
241 accaaaggta acgtataagg tgggagaagg tgtgtctggg ctgcccgact taacaaccgt
301 ggcacaacct gacgcacaga acacagccta tagtgtcccc ccacttagcc agagagaggt
361 cggcgaagct aaagaaccgt tgcctggctc cattctggaa atgtgggatg gtgagatcta
421 ccactatggg ctgtacgttg agcgggggca tgtgctggga gtgcacaaac cacctgctgc
481 aataagcctt gccaaaattg agttaacacc gctgtctctc tactggagag tggtctacac
541 tccccaatac ttgatagctc cagagaccct caagaattta aatggagaga ctttcccata
601 cacggccttt gacaacaact gttatgcctt ctgttgttgg gttctagacc tcaacgactc
661 ctggcttagc agaagaatgg tccaaagaac aaccgggttc ttcagaccgt atcaggactg
721 gaacagaaaa cccttgccaa ccatggatga accaaaaatc aagaaggccg cgaatgctgt
781 tctgtgtgct ctctcctcac tcttcactag gcccatcaaa gatgtcattg gaaagcttaa
841 accactaaac attatgaaca tactggcaac ttgtgattgg acttttgcgg gcatagtgga
901 atccatgatc cttcttgctg aactctttgg ggtgttctgg acgcccccag atgtgtctgc
961 aataattgct cccttactcg gtgactacga gatgcaaggc cccgaagacc tggccgtgga
1021 acttgtgccc gtggtaatgg gaggaatagg tttggtgtta ggattcacca aggaaaaggt
1081 cggcaagatg ctttcatcag ctgcaaccac actcagggcc tgtaaggatc taggatctta
1141 tgggttggag atactcaaac tggtcatgaa gtggttcttc cccaagaagg aggaggccaa
1201 cgagttagcc atggtgaggg ccattgagga tgcagttctg gatttggagg caatagaaaa
1261 caaccacatg accactctcc ttaaggacaa agacgccctg gccacataca tgaggactct
1321 tgacttggaa gaagaaaaag caaggaaact atcttccaaa tcggcgtcac ctgacatcgt
1381 gggcacagta aacgcattat tggcaagaat agcagccgcc aggtcattag tccacaaggc
1441 taaggaggag ctctcgagca gacagagacc tgttgttgta atgatatcag gtaggccagg
1501 tataggaaag acccatctgg ccagagagct agccaagaag gttgcgtcaa cactgtcagg
1561 cgaccaaagg attggactga tacccagaaa tggcgtcgac cattgggacg cctacaaagg
1621 agagcgggtg gttctgtggg atgactatgg catgagcaac cctatacagg acgcactgag
1681 gctccaagaa ttggctgaca cctgtcctct gaccctaaat tgtgacagaa ttgaaaacaa
1741 aggaaaagtg ttcgacagtg acgccataat cataacaacc aaccttgcaa acccagcacc
1801 attggattat gtcaactttg aggcttgttc cagacgcata gacttcttgg tgtatgcaga
1861 cgcacctgac atcgagaagg ctaagcgtga cttccctggc caaccagata tgtggaaaga
1921 ccattacaga ccagacttct cacacattaa acttcagctc gcaccacagg gaggctttga
1981 taagagtggc aacaccccac atggcaaagg tgtggttaag tctctgacga ttggttctct
2041 gatcgccagg gcttctggct tgctccatga gagaatggat gaattcgagc tccaaggccc
2101 caacttacca accttcaatt tcgaccgtaa caaagtcgcc gccttcagac aattggcagc
2161 tgaaaacaaa tacggtctta tggacacact gagggtcggc aaccaactga aaagtgtcaa
2221 aaccctggat gagctgaagc aggctataaa gaacatcacc atcaagaagt gccagatagt
2281 gtacaatgga tgcacctaca ccatggaatc tgatgggagg aacaaggttg tggttgagaa
2341 ggttcaaaat gcaacagtcc aaatcaacaa tgaacttgca ggagcactcc accacctgag
2401 atctgcaaga ataagatatt atgtcaaatg tttccaagaa gctatttact ctatactcca
2461 aattgctggt gcagccttcg tcaccacacg catcgtgagg cgcatgaaca tctcaaacct
2521 ctggtcgaag ccacccgtcg aagagggtga tgagcctgaa gacaaagggg ggtgccccaa
2581 gcccagggat gaagatgacc tcactattga ctccaaagac attaaagcag aaggtaagaa
2641 gggcaagaac aaatctggcc ggggcaagaa acacacagct ttctcatcca agggcctcag
2701 tgatgaagag tacgatgagt acaagagaat cagggaggag agaaatggca agtactcaat
2761 agaagaatac ctccaggata gggatagata ctatgaagag cttgccattg ctaaggccac
2821 tgaggaagac ttctgtgaag aggaggaaat caaaattcgc cagagaatct tccgacccac
2881 caggaagcag cggaaagagg aaagagccac gcttgggctc gtcacaggat cggaaatcag
2941 aaagaggaac ccagatgatt ttaagccaaa aggaaaattg tgggctgatg ataacaggag
3001 tgtggactac aatgagagga tagattttga ggctccccca agtgtttggt ctaggatagt
3061 caactttggt acagggtggg gattctgggt ctccccaagt ctctttataa cttcaacaca
3121 tgtcatacca aaaggaatca ctgaggcctt tggagttccc attaaccaaa ttcaaattca
3181 caaatctgga gagttttgcc gcttgcggtt tccaaaacca atcaggccag acgtgagtgg
3241 aatgatcttg gaagagggtg cccctgaagg cactgttgtt tccattctca tcaagaggac
3301 gacaggggaa ctgatgcctc tcgcagttag aatgggaact catgccacaa tgaaaatcca
3361 aggtagaacg gtgggcggtc aaatgggcat gcttctcact ggctcaaacg ccaaaagcat
3421 ggacctaggc acaacaccag gtgactgtgg gtgcccatac atatacaaaa ggggcaatga
3481 cttcgtggtc attggggtgc acactgcagc agcccgtgga ggtaacacgg tcatatgtgc
3541 cacacagggg agtgaaggcg aagccaccct cgaaggaggt gacaacaagg gcacctattg
3601 tggagccccc atcttgggac ctggcaacgc accaaaattg agcacaaaaa caaaattctg
3661 gagatcttct aacgcgccgc tcccgccagg cacctatgaa ccagcatacc ttggtggaaa
3721 agacccgcgt gtgaagggag gcccatctct acaacaggtt atgagagacc aactcaaacc
3781 ttttacagag cccaggggga agccaccaaa accaggtgtc ctagaatcag caaagaagac
3841 catcattaat gttctggaac aaaccattga cccccctgaa aagtggtcat atgcccaagc
3901 ttgtgcatcc ctcgacaaga caacctccag tggatacccg catcacgtcc ggaagaatga
3961 ctactggagt ggtgaatcct tcacggggaa acttgcagac caggcctcaa aagcaaatct
4021 catgtatgag gaaggtaagc acatgcaacc agtttacacc gcagcactca aagacgagct
4081 cgtgaaaact gacaaaattt atggcaagat caagaaaaga ctcctgtggg gctctgacct
4141 atccaccatg attcgatgtg ccagggcatt tggtggcctc atggatgagc tcaaagctaa
4201 ttgtatcaca ctccctatca gagttggtat gaacatgaat gaagatggtc ccataatatt
4261 tgaaaagcac tccaggtaca ggtaccacta tgatgctgat tattcccgct gggattccac
4321 acaacagcgg gcagtgctgg aagcggcgct tgaaatcatg gtgagatttt ctgctgagcc
4381 acagttggca caaatagtgg cagaggacct gctatcacca agtgtggttg atgtgggcga
4441 tttcaaaatt actattaatg aaggcctacc atctggcgtg ccttgcactt cacaatggaa
4501 ttctattgcc cactggttac tcaccctatg tgccctgtct gaagtgacag gactaggccc
4561 tgacatcata caagccaact ccatgtactc tttctatggt gatgatgaga ttgtgagcac
4621 agatataaaa ttggacccag agaaattgac tgcaaaactc aaagaatatg gtcttaaacc
4681 cacccggcct gacaagactg aggggccact ggtaattagt gaggacctga atgggttgac
4741 tttcctccgc cgaacagtca cccgcgatcc ggcgggttgg tttggaaagt tggaccaaaa
4801 ctccatcctc agacagctgt actggacaag gggacccaac catgaagacc ccagtgagac
4861 tatgatacca cacgcacaga gacctgtgca gctcatggca ttgctaggag aatcctccct
4921 acatggaccc tcattttaca gcaaggttag taagctggtt atatctgaac ttaaagaggg
4981 aggaatggat ttttatgtgc ccagacaaga gtcaatgttc aggtggatga ggttctcaga
5041 tctaagcaca tgggagggcg atcgcaatct ggctcccagt tttgtgaatg aagatggcgt
5101 cgaatgacgc cgctccatct aatgatggtg ctgctggtct cgtaccagag ggcaataacg
5161 agacccttcc cctagaacca gttgcgggcg cagccatagc cgcacctgtc actggccaaa
5221 ataatataat tgacccctgg attagaacaa attttgtgca agcaccaaat ggagagttca
5281 cagtgtcacc cagaaactct cctggagaaa ttttactaaa cctagagttg ggccctgatc
5341 tgaaccctta tttggctcat ttgtcaagga tgtataatgg atatgctggt ggagttgaag
5401 tccaggttct cctggcaggg aacgcgttca ctgccgggaa gatcctcttc gccgctgtcc
5461 cgccaaattt cccagtggaa ttcttaagcc cagcccagat tacaatgctc ccacatataa
5521 tagtagatgt taggactctt gaaccaatta tgatcccatt acctgatgtt aggaatacat
5581 tcttccacta taataatcag tccaacagcc gcatgagatt agtggctatg ctctataccc
5641 cccttagatc taatggctca ggtgatgatg ttttcactgt ttcttgcagg gttttgacta
5701 ggcctactcc tgattttgag ttcacttatc tagtgccacc ctctgttgaa tctaagacta
5761 aacccttttc tttacccatt ctaacccttt ctgagctcac aaattcgagg ttcccggtcc
5821 ccatcgattc gcttttcacc gcccaaaata atgtgttgca ggtgcagtgt caaaatggca
5881 ggtgcacact tgacggtgag ctacaaggca caacccagtt gctcccatct ggcatctgtg
5941 cgttcagggg acgggtgaca gcagaaactg acaatactga caagtggcac atgcaactgc
6001 aaaaccttaa tggcacaaca tatgacccaa ctgatgatgt gccagcccca ctgggtacac
6061 ctgacttcaa gggcgtcgtg tttgggatgg caagccaaag aaatgtgggt aacgacgcgc
6121 ccggctcaac caggtcccat gaggcggtga tttcaaccta cagccccaga tttgttccta
6181 aattaggctc tgtcaatttc aaaagcaatg acgatgattt ccaattgcag ccaacaagat
6241 tcacaccagt gggcattaat gatgatggca accaaccatt cagacaatgg gaactaccag
6301 attattcagg ggtgcttacc ttgaatatga accttgcccc cccggttgct ccaaatttcc
6361 ctggcgaaca attactattc ttcagatctt ctgtgccatg ttcaggaggt tacaaccaag
6421 gtattataga ttgcctcatc ccccaagaat ggatccaaca cttctaccag gaatcagcac
6481 cttctcagtc agaagtggcc ctaatcaggt acgtcaaccc cgacacgggt cgtacactgt
6541 ttgaggcaaa attgcatagg tcaggctata tcactgtggc tcactctggg gactatcctc
6601 ttgttgttcc ggctaatgga tactttagat ttgactcttg ggtaaatcag ttttactcac
6661 tcgccccaat gggaactggg aatgggcgaa ggagggctca gtaatggctg gagctttcat
6721 cgcaggattg gcgggtgaca tgctcacgtc atccgtgggc tccctggtga acgcaggggc
6781 aaacgccatc aaccaaaaga tagactttga aaacaacaaa caactccagt ctgcttcctt
6841 tcaacatgat aaagagatgc tccaagcgca ggtgaacgca accaagcagc tgcaatctga
6901 gatgatagcc ctaaaacagg gggttttggc cgcaggcggc ttctccccca ctgatgcagc
6961 gaggggggcc atcggtgcac ccatgacaaa ggtgcttgac tggtctggca ctcgatactg
7021 ggctcccaat tccacaaaga caactggtta ttcggggcaa ttcacctctt cacctgtgca
7081 catgcccagc ccgagtgtcc cacaatcaaa acccgcaaag cccaagtctc taggttcttc
7141 ttcttcttct agtagtgttt acagtatgtc tacccaatta acttctctaa catctggctc
7201 ttctagtaat gcttcttctg cttctacaaa attgacaaat ttaagctccg gctctcctca
7261 aaacagaaca gcagagtggg tgaaccaaca gagaagtctc agccctttca tgagtggcgc
7321 actcaatatc tcgcatgtca cgccaccttc aagtagggcc tccagttctg ggacggtctc
7381 aaccgtgccc aaggaagttt tggactcctg gacatctgca ttcaacacac gcagacagcc
7441 gctcttcgca cacctcagag tgagggggga gtcacgtgtt tagtgaaaag aaacaattgg
7501 ctataatatg atttctttaa aatttaaatt tggctaattt gtatctttta aaaa
//