Typing tool
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Typing tool
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Complete norovirus genomes
| PQ310519 | GII.17 | |
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| GII.P17 |
ORF1: 5..5113
ORF2: 5094..6710
ORF3: 6710..7489
LOCUS PQ310519 7555 bp RNA linear VRL 17-OCT-2024
DEFINITION Norovirus GII isolate Hu/GII.17[P17]/020/2024/DE, complete genome.
ACCESSION PQ310519
VERSION PQ310519.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7555)
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 7555)
AUTHORS Niendorf,S. and Jacobsen,S.
TITLE Direct Submission
JOURNAL Submitted (11-SEP-2024) Department of Infectious Disease, Robert
Koch-Institute, Laboratory for Norovirus, Berlin 13353, Germany
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..7555
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="Hu/GII.17[P17]/020/2024/DE"
/isolation_source="stool"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Germany"
/collection_date="24-Jan-2024"
/note="genotype: GII.17[P17]"
gene 5..5113
/gene="ORF1"
CDS 5..5113
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XGR33660.1"
/translation="MKMASNDASVAVAGKNNNNDNVKSSSDSLFSNMTVTFKKALGAR
SKQPPPGETKQTLRPPRPPTPELVKKIPPPPPNGEDEPKVTYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAREPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIELTPLSLYWRVVYTPQYLIAPETLKNLNGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMVQRTTGFFRPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDV
IGKLKPLNIMNILATCDWTFAGIVESMILLAELFGVFWTPPDVSAIIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDALATYMRTLDLEEEKARK
LSSKSASPDIVGTVNALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLIPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHYRPDFSHIKLQLAPQGGFDKSGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGPNLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNITIKKCQIVYNGCTYTMESDGRNKVVVEKVQNATVQTNNELAGALH
HLRSARIRYYVKCFQEAIYSILQIAGAAFVTTRIVRRMNISNLWSKPPVEEGDEPEDK
GGCPKPRDEDDLTIDSKDIKAEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDFVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGKDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPKPSVLESAKKTIINVLEQTIDPPEKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKITINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPGFVNEDGVE"
mat_peptide 5..1003
/gene="ORF1"
/product="p48"
mat_peptide 1004..2101
/gene="ORF1"
/product="NTPase"
mat_peptide 2102..2638
/gene="ORF1"
/product="p22"
mat_peptide 2639..3037
/gene="ORF1"
/product="VPg"
mat_peptide 3038..3580
/gene="ORF1"
/product="Pro"
mat_peptide 3581..5110
/gene="ORF1"
/product="RdRp"
gene 5094..6710
/gene="ORF2"
CDS 5094..6710
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XGR33661.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHIIVDVRTLEPIMIPLPD
VRNTFFHYNNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAETDNPDKWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
ASQRNVGNDAPGSTRSHEAVISTYSPRFVPKLGSVNFKSNDDDFQLQPTRFTPVGIND
DGNQPFRQWESPDYSGVLTLNMNLAPPVAPNFPGEQLLFFRSSVPCSGGYNQGIIDCL
IPQEWIQHFYQESAPSQSEVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLVVP
ANGYFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6710..7489
/gene="ORF3"
CDS 6710..7489
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XGR33662.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVNATKQLQSEMIALKQGVLAAGGFSPTDAARGAIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMPSPSVPQSKPAKPKSLGSSSSSSSVYSMSTQLT
SLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTRRQPLFAHLRVRGESRA"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgttgccgtt gctggcaaaa acaacaacaa
61 cgacaatgta aaatcttcaa gtgacagctt gttttctaac atgactgtta cttttaagaa
121 agccctcggg gcgcggtcta agcagccgcc cccgggagaa acaaaacaaa cactaagacc
181 accaaggccg ccgacaccgg aattggtgaa gaagataccc ccacctcccc ccaatggcga
241 ggatgaacca aaggtaacgt ataaggtggg agaaggtgtg tctgggctgc ccgacttaac
301 aaccgtggca caacctgacg cacagaacac agcctatagt gtccccccac ttagccagag
361 agaggtcggc gaagctagag aaccgttgcc tggctccatt ctggaaatgt gggatggtga
421 gatctaccac tatgggctgt atgttgagcg ggggcatgtg ctgggagtgc acaaaccacc
481 tgctgcaata agccttgcca aaattgagtt aacaccgctg tctctctact ggagagtggt
541 ctacactccc cagtacttga tagctccaga gaccctcaag aatttaaatg gagagacttt
601 cccatacacg gcctttgaca acaactgtta tgccttctgt tgttgggttc tagaccttaa
661 cgactcctgg cttagcagaa gaatggtcca aagaacaacc ggattcttca gaccgtatca
721 ggactggaac agaaaaccct taccaaccat ggatgaacca aaaatcaaga aggccgcgaa
781 tgctgttctg tgtgctctct cctcactctt cactaggccc atcaaagatg tcattggaaa
841 gcttaaacca ctaaacatta tgaacatact ggcaacttgt gattggactt ttgcgggcat
901 agtggaatcc atgatccttc ttgctgaact ctttggggtg ttctggacgc ccccagatgt
961 gtctgcaata attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc
1021 cgtggaactt gtgcccgtgg taatgggagg aataggtttg gtgttaggat tcaccaagga
1081 aaagatcggc aagatgcttt catcagctgc aaccacactc agggcctgta aggatctagg
1141 atcttatggg ttggagatac tcaaactggt catgaagtgg ttcttcccca agaaggagga
1201 ggccaacgag ttagccatgg tgagggccat tgaggatgca gttctggatt tggaggcaat
1261 agaaaacaac cacatgacca ctctccttaa ggacaaagac gccctggcca catacatgag
1321 gactcttgac ttggaagaag aaaaagcaag gaaactatct tccaaatcgg cgtcacctga
1381 catcgtgggt acagtaaacg cattattggc aagaatagca gccgccaggt cactggtcca
1441 caaggctaag gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtag
1501 gccaggtata ggaaagaccc atctggccag agagctagcc aagaaggttg cgtcaacact
1561 gtcaggcgac caaaggattg gactgatacc cagaaatggc gtcgaccatt gggacgccta
1621 caaaggagag cgggtggttc tgtgggatga ctatggcatg agcaacccta tacaggacgc
1681 actgaggctc caagaattgg ctgacacctg tcctctgacc ctaaattgtg acagaattga
1741 aaacaaagga aaagtgttcg acagtgacgc cataatcata acgaccaacc ttgcaaaccc
1801 agcaccattg gattatgtca actttgaggc ttgctccaga cgcatagact tcttggtgta
1861 tgcagacgca cctgacatcg agaaggctaa gcgtgacttc cctggccaac cagatatgtg
1921 gaaagaccat tacagaccag acttctcaca cattaaactt cagctcgcac cacagggagg
1981 ctttgataag agtggcaaca ccccacatgg caaaggtgtg gttaagtctc tgacgattgg
2041 ttctctgatc gccagggctt ctggcttgct ccatgagaga atggatgaat tcgagctcca
2101 aggccccaac ttaccaacct tcaatttcga ccgtaacaaa gtcgccgcct tcagacaatt
2161 ggcagctgaa aacaaatacg gtcttatgga cacactgagg gtcggcaacc aactgaaaag
2221 tgtcaaaacc ctggatgagc tgaagcaggc tataaagaac atcaccatca agaagtgcca
2281 gatagtgtac aatggatgca cctacaccat ggaatctgat gggaggaaca aggttgtggt
2341 tgaaaaggtt caaaatgcaa cagtccaaac caacaatgaa cttgcaggag cactccacca
2401 cctgagatct gcaagaataa ggtattatgt caaatgtttc caagaagcta tttactctat
2461 actccaaatt gctggtgcag ccttcgtcac cacacgcatc gtgaggcgca tgaacatctc
2521 aaacctctgg tcgaagccac ccgtcgaaga gggtgatgag cctgaagaca aaggggggtg
2581 ccccaagccc agggatgaag atgacctcac tattgactcc aaagacatta aagcagaagg
2641 taagaagggc aagaacaaat ctggccgggg caagaaacac acagctttct catccaaggg
2701 cctcagtgat gaagagtacg atgagtacaa gagaatcagg gaggagagaa atggcaagta
2761 ctcaatagaa gaatacctcc aggataggga tagatactat gaagagcttg ccattgctaa
2821 ggccactgag gaagacttct gtgaagagga ggaaatcaaa attcgccaga gaatcttccg
2881 gcccaccagg aagcagcgga aagaggaaag agccacgctt gggctcgtca caggatcgga
2941 aatcagaaag aggaacccag atgattttaa gccaaaagga aaattgtggg ctgatgacaa
3001 caggagtgtg gactacaatg agaagataga ttttgaggct cccccaagtg tttggtctag
3061 gatagtcaac tttggtacag gatggggatt ctgggtctcc ccaagtctct ttataacttc
3121 aacacatgtc ataccaaaag gaatcactga ggcctttgga gttcccatta accaaattca
3181 aattcacaaa tctggagagt tttgccgctt gcggtttcca aaaccaatca ggccagacgt
3241 gagtggaatg atcttggaag agggtgcccc tgaaggcact gttgtttcca ttctcatcaa
3301 gaggacgaca ggggaactga tgcctctcgc agtcagaatg ggaactcatg ccacaatgaa
3361 aatccaaggt agaacggtgg gcggtcaaat gggcatgctt ctcactggct caaacgccaa
3421 aagcatggac ctaggcacaa caccaggtga ctgtgggtgc ccatacatat acaaaagggg
3481 caatgacttc gtggtcattg gggtgcacac tgcagcagcc cgtggaggta acacggtcat
3541 atgtgccaca caggggagtg aaggcgaagc caccctcgaa ggaggtgaca acaagggcac
3601 ctattgtgga gcccccatct tgggtcctgg caacgcacca aaattgagca caaaaacaaa
3661 attctggaga tcttctaacg cgccgctccc gccaggcacc tatgaaccag cataccttgg
3721 tggaaaagac ccgcgtgtga agggaggccc atctctacaa caggttatga gagaccaact
3781 caaacctttt acagagccca gagggaagcc accaaaacca agtgtcttag aatcagcaaa
3841 gaagaccatc attaatgttc tggaacaaac cattgacccc cctgaaaagt ggtcatatgc
3901 ccaagcttgt gcatccctcg acaagacaac ctccagtgga tacccgcatc acgtccggaa
3961 gaatgactac tggagtggtg aatccttcac ggggaaactt gcagaccagg cctcaaaagc
4021 aaatctcatg tatgaggaag gtaagcacat gcaaccagtt tacaccgcag cactcaaaga
4081 cgagctcgtg aaaactgaca aaatttatgg caagatcaag aaaagactcc tgtggggctc
4141 tgacctatcc accatgattc gatgcgccag ggcatttggt ggcctcatgg acgagctcaa
4201 agcaaattgt atcacactcc ctatcagagt tggtatgaac atgaatgaag atggtcccat
4261 aatatttgaa aagcactcca ggtacaggta ccactatgat gctgattatt cccgctggga
4321 ttccacacaa cagcgggcag tgctggaagc ggcacttgaa atcatggtga gattttctgc
4381 tgagccacag ttggcacaaa tagtggcaga ggacctgcta tcaccaagtg tggttgatgt
4441 gggcgatttc aaaattacta ttaatgaagg cctaccatct ggcgtgcctt gcacttcaca
4501 atggaattct attgctcact ggttactcac cctatgtgcc ctgtctgaag tgacaggact
4561 aggccctgac atcatacaag ccaactccat gtactctttc tatggtgatg atgagattgt
4621 gagcacagac ataaaattag acccagagaa attgactgca aaactcaaag aatatggtct
4681 taaacccacc cggcctgaca agactgaggg gccactggta attagtgagg acctgaatgg
4741 gttgactttc ctccgccgaa cagtcacccg cgatccagcg ggttggtttg gaaagttgga
4801 ccaaaactcc atcctcagac agctgtactg gacaagggga cccaaccatg aagaccccag
4861 tgagactatg ataccacacg cacagagacc tgtgcagctc atggcattgc taggagaatc
4921 ctccctacat ggaccctcat tttacagcaa ggttagcaag ctggttatat ctgaacttaa
4981 agagggagga atggattttt atgtgcccag acaagagtca atgttcaggt ggatgaggtt
5041 ctcagaccta agcacatggg agggcgatcg caatctggct cccggttttg tgaatgaaga
5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca
5161 ataacgagac ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg
5221 gccaaaataa tataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag
5281 agttcacagt gtcacccaga aactctcctg gagaaatttt actaaaccta gagttgggcc
5341 ctgatctgaa cccttatttg gctcatttgt caaggatgta taatggatat gctggtggtg
5401 ttgaagtcca ggttctcctg gcagggaacg cgttcactgc cgggaagatc ctcttcgccg
5461 ctgtcccgcc aaattttccg gtggaattct taagcccagc ccagattaca atgctcccac
5521 atataatagt agatgttagg actcttgaac caattatgat cccattacct gatgttagga
5581 atacattctt ccactataat aatcagccca acagccgcat gagattagtg gctatgctct
5641 acacccccct tagatctaat ggctcaggtg atgatgtttt cactgtttct tgcagggttt
5701 tgactaggcc tactcctgat tttgagttca cttatctagt gccaccctct gttgaatcta
5761 agactaaacc cttttcttta cccattctaa ccctttctga gctcacaaat tcgaggttcc
5821 cggtccccat cgattcgctt ttcaccgccc aaaataatgt gttgcaggtg cagtgtcaaa
5881 atggcaggtg cacacttgac ggtgagctac aaggcacaac ccagttgctc ccatctggca
5941 tctgtgcgtt caggggacgg gtgacagcag aaactgacaa tcctgacaag tggcacatgc
6001 aactgcaaaa ccttaatggc acaacatatg acccaactga tgatgtgcca gccccactgg
6061 gtacacctga cttcaagggc gtcgtgtttg ggatggcaag ccaaagaaat gtgggtaacg
6121 acgcgcccgg ctcaaccagg tcccatgagg cggtgatttc aacctacagc cccagatttg
6181 ttcctaaatt aggctctgtc aatttcaaaa gcaatgacga tgatttccaa ttgcagccaa
6241 caagattcac accagtgggc attaatgatg atggcaacca accattcaga caatgggaat
6301 caccagatta ttcaggggtg cttaccttga atatgaacct tgccccccct gttgctccaa
6361 atttccctgg cgaacaatta ctattcttca gatcttctgt gccatgttca ggaggttaca
6421 accaaggtat tatagattgc cttatccccc aagaatggat ccaacacttc taccaggaat
6481 cagcaccttc tcagtcagaa gtggccctaa tcaggtacgt caaccccgac acgggtcgta
6541 cactgtttga ggcaaaattg cataggtcag gctatatcac tgtggctcat tctggagact
6601 atcctcttgt tgttccggct aatggatact ttagatttga ctcttgggta aatcagtttt
6661 actcactcgc cccaatggga actgggaatg ggcgaaggag ggctcagtaa tggctggagc
6721 tttcattgca ggattggcgg gtgacatgct cacgtcatcc gtgggctccc tggtgaacgc
6781 aggggcaaac gccatcaacc aaaagataga ctttgaaaac aacaaacaac tccagtctgc
6841 ttcctttcaa catgataaag agatgctcca agcgcaggtg aacgcaacca agcagctgca
6901 atctgagatg atagccctaa aacagggggt tttggccgca ggcggctttt cccccactga
6961 tgcagcgagg ggggccatcg gtgcacccat gacaaaggtg cttgactggt ctggcactcg
7021 atactgggct cccaattcca caaagacaac tggttattcg gggcaattca cctcttcacc
7081 tgtgcacatg cccagcccga gtgtcccaca atcaaaaccc gcaaagccca agtctctagg
7141 ttcttcttct tcttctagta gtgtttacag tatgtctacc caactaactt ctctaacatc
7201 tggctcttct agtaatgctt cttctgcttc tacaaaattg acaaatttga gctctggctc
7261 ttctcaaaac agaacagcag agtgggtgaa ccaacagaga agtctcagcc ctttcatgag
7321 tggcgcactc aatatctcgc atgtcacgcc accttcaagt agggcctcca gttctgggac
7381 ggtctcaacc gtgcccaagg aagttttgga ctcctggaca tctgcattca acacacgcag
7441 acagccgctc ttcgcacacc tcagagtgag gggggagtca cgtgcttagt gaaaagaaat
7501 aattggctat aatatgattt ctttaaaatt taaatttggc taatttgtat ctttt
//