Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373127 | GII.17 | |
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| GII.P17 |
ORF1: 5..5113
ORF2: 5094..6716
ORF3: 6716..7495
LOCUS PQ373127 7557 bp RNA linear VRL 30-SEP-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV19-19, complete genome.
ACCESSION PQ373127
VERSION PQ373127.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7557)
AUTHORS Vennema,H., Cremer,J., Jaarsma,R., van der Veer,B., Schmitz,D.,
Zwagemaker,F. and Kroneman,A.
TITLE Direct Submission
JOURNAL Submitted (25-SEP-2024) Centre for Infectious Disease Control,
National Institute for Public Health and the Environment, Antonie
Van Leeuwenhoeklaan, Bilthoven, Utrecht 3721 MA, Netherlands
COMMENT ##Assembly-Data-START##
Assembly Method :: Jovian v. 2.0.1
Sequencing Technology :: Sanger dideoxy sequencing; Illumina
##Assembly-Data-END##
FEATURES Location/Qualifiers
source 1..7557
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV19-19"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="09-May-2019"
/note="genotype: GII.17"
gene 5..5113
/gene="ORF1"
CDS 5..5113
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05702.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR
SKQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVV
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIEITPLSLYWRVVYTPQYLIDTGTLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLSTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGCTYAMESDGRGKVVVEKVQNAAVQTNNELVGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDK
GGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYMYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
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..6716
/gene="ORF2"
CDS 5094..6716
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XHF05703.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGATYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIMD
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVVHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6716..7495
/gene="ORF3"
CDS 6716..7495
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XHF05704.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPSAPQLKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKSTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa
61 cgacaaggaa aaatcttcaa gtgacagctt gtttgctaac atgtctgtta cttttaagaa
121 agccctcggg gcgcggtcta aacaaccgcc cccgggagaa acaaaacaaa tacaaaaacc
181 accaaggcca ccgacaccgg aattggtgaa gaggatacct ccacccccac ccaatggcga
241 ggatgaacca gggatagtgt acaaggtggg agagggtgtg tctgggctgc ccgacctaac
301 aactgtggtg caacctgacg cacaaaacac agcttatagt gttcccccac ttagccagag
361 agaagtcggc gaagctaaag aaccgctgcc tggctccatt ctggaaatgt gggatggtga
421 gatctaccac tatgggctgt atgttgagcg ggggcatgtg ctcggagtac acaaaccacc
481 tgctgcaata agccttgcca aaattgaaat aacaccgctg tctctctact ggagagtggt
541 ctacaccccc cagtatttga tagatacagg aactcttaag aacttgagtg gagagacttt
601 cccatacacg gcctttgaca acaactgcta tgccttctgt tgttgggtcc tagacctcaa
661 cgactcctgg cttagcagga gaatgatcca aagaacaact ggatttttca aaccttatca
721 ggattggaac agaaaacctt taccaaccat ggatgaaccg aaaatcaaga aggccgcgaa
781 tgctgtccta tgcgctctct cctcactctt cactagaccc attaaggaca tcattgggaa
841 gcttagacca ctgaacattc ttaatatact ggcaacctgc gattggactt ttgcaggcat
901 agtggaatcc ttgatccttc ttgctgaact ctttggggtg ttctggacac ccccagatgt
961 gtctgcgatg attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc
1021 cgtggaactt gtgcccgtgg tgatgggagg aattggtttg gtgttaggat tcaccaaaga
1081 aaagatcggc aagatgcttt catcggctgc gaccacactt agggcctgca aggatctagg
1141 atcttatgga ttggaaatac tcaaattggt catgaagtgg ttcttcccca agaaggagga
1201 ggctaacgaa ctagccatgg tgagggccat tgaggatgca gtcctggatt tggaggcaat
1261 agaaaacaat cacatgacca cccttctcaa ggataaagac agcctggcca catacatgag
1321 gactcttgac ttggaagaag agaaagcaag gaaactgtca accaaatcgg cgtcacctga
1381 catcgtgggt acaataaacg ctttattggc taggatagca gccgccaggt cactggttca
1441 caaggctaag gaggagctct cgagcagaca gagacctgtt gttgtaatga tatcaggtag
1501 accaggtata ggaaagaccc atctggccag agagctagcc aagaaagttg cgtcaacact
1561 gtcaggcgac caaaggattg gactggtacc tagaaatggc gtcgaccatt gggacgccta
1621 caagggagaa agggtggttc tgtgggatga ttatggtatg agcaatccta tacaggacgc
1681 actgaggctc caagagttgg ctgacacctg tcctctgacc ctaaattgtg ataggattga
1741 aaacaaagga aaagtgttcg acagtgatgc cataatcata acaaccaacc ttgcaaaccc
1801 agcaccactg gactatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta
1861 tgcagacgca cctgacattg agaaggctaa gcgtgacttc cctggccaac cagatatgtg
1921 gaaagaccat ttcagaccag acttctcaca tattaaactt cagctggcac cacagggagg
1981 ttttgacaaa aatggcaaca ccccacatgg caaaggtgtg gtgaagtccc tgacgatcgg
2041 ttctctgatc gccagggcct ccggcttgct ccacgagaga atggatgaat tcgagctcca
2101 aggctctgac ctgtcaacct tcaattttga ccgcaacaaa gtcgccgcct tcagacaatt
2161 agcagctgaa aacaaatatg gtcttatgga cacactgagg gtcggcaacc aactgaaaag
2221 tgttaagacc ctggatgagt tgaagcaggc cataaagaac atcagtatca agaagtgtca
2281 gatagtgtat aatggatgca cctatgccat ggaatctgat gggaggggca aggttgtggt
2341 tgaaaaggta caaaacgcag cagtccaaac caacaatgaa cttgtagggg cgctccacca
2401 cctgagatct gcaaggataa gatactatgt taaatgtttc caagaagcca tttactctct
2461 actccaaatt gctggtgcag ccttcgtcac ctcacgcatc gtgaggcgca tgaacatatc
2521 aaacctctgg tcgaagccac ccatcgagga gggtgatgag cctgaagaca aaggaggatg
2581 ccccaagccc agggatgaag atgacctcac tattgactct agagacatta aagtggaagg
2641 gaagaagggc aagaacaagt ctggccgggg caagaaacac acagccttct cttccaaggg
2701 cctcagtgat gaagagtacg atgagtacaa gagaatcaga gaggagagga atggcaaata
2761 ctcaatagag gaatacctcc aagataggga cagatactat gaagagcttg ccattgctaa
2821 ggccactgag gaggacttct gtgaggagga ggagatcaaa atccgccaga gaatcttccg
2881 acccaccagg aagcagcgga aagaggaaag ggccacgctt gggcttgtca caggatcgga
2941 aatcagaaaa aggaatccag atgactttaa accaaaagga aaattgtggg ctgatgacaa
3001 caggagcgtg gattacaatg agaggataga ttttgaggct cccccgagtg tttggtctag
3061 gatagtcaac tttggcacag gctggggatt ctgggtttct ccaagcctct ttataacttc
3121 aacacacgtc ataccaaaag gaatcactga ggcctttgga gtgcccataa atcaaatcca
3181 aattcacaaa tctggagaat tttgccgctt gcggtttcca aagccaatta gaccagacgt
3241 gagtgggatg atcttggaag agggcgcccc tgaaggcact gttgtgtcca ttctcatcaa
3301 aaggacaaca ggggagctga tgcctcttgc agtcagaatg gggactcatg ccacaatgaa
3361 aatccaaggt agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa
3421 aagcatggat ctaggcacaa cgccaggtga ctgcggatgt ccatacatgt acaaaagggg
3481 caatgacctt gtggtcattg gggtgcacac tgcagcagct cgtggaggca acacggtcat
3541 atgtgccaca cagggaagtg aaggtgaagc cactcttgaa ggaggtgaca acaagggtac
3601 ctattgtgga gcccccattt tgggacctgg caatgcacca aaattgagca caaagacaaa
3661 attctggaga tcctctaacg caccgcttcc cccaggtact tatgaaccag cataccttgg
3721 tgggagagac ccgcgcgtga agggaggccc atctctgcaa caagttatga gagaccaact
3781 taaacctttt acagagccca gagggaagcc accaaaccca aatgtcttag agtcagcaaa
3841 gaagactatc atcaatgttc tggaacaaac cattgacccc cctcaaaagt ggtcatatgc
3901 ccaagcttgt gcatccctcg acaagacaac ctccagtgga tacccgcacc acgtccggaa
3961 gaatgactat tggagtggtg aatccttcac aggaaaactt gcagatcagg cttcaaaagc
4021 aaatctcatg tatgaggaag gcaagcacat gcaaccagtt tataccgcag cactcaaaga
4081 cgagctcgtg aaaactgaca aaatttatgg caaaatcaag aaaagactcc tgtggggttc
4141 tgacctctcc acaatgattc gatgcgccag agcatttggt ggtctcatgg atgaattcaa
4201 agcaaattgt atcacactcc ctatcagagt tggtatgaat atgaatgaag atggtcccat
4261 aatatttgag aagcactcca ggtacaggta ccactatgat gctgattact cccgctggga
4321 ctccacacaa cagcgggcag tgttggaagc ggcacttgaa atcatggtga gattttctgc
4381 tgagccacag ctagcacaaa tagtggcaga ggacctgctg tcaccaagtg tggttgatgt
4441 gggcgatttt aaaatcgcta tcaatgaagg cctaccatct ggcgtgcctt gcacctcaca
4501 atggaattct attgcccact ggttacttac cttgtgtgcc ctttctgaag tgacaggatt
4561 aggtcctgac atcatacaag ctaactccat gtactctttc tatggtgatg atgagattgt
4621 gagcacagac ataaaattgg acccagagaa attgaccgca aagctcaaag aatatggcct
4681 taaacccact cggcccgaca aaactgaggg gccgttggtg attagtgagg acctgaatgg
4741 gttgactttc ctccgccgaa cagtcacccg tgatccagca ggttggtttg gaaaattgga
4801 ccaaaactcc atcctcaggc agttgtactg gacaagagga cccaaccatg aagaccccag
4861 tgagaccatg ataccacacg cacaaagacc tgtgcagctc atggcactac taggagaatc
4921 ctccctacat ggaccctcat tttacagcaa ggttagcaaa ttagtcatat ctgaacttaa
4981 agagggagga atggattttt atgtgcccag acaagagtca atgttcagat ggatgaggtt
5041 ctcagatcta agcacatggg agggcgatcg caatctggct cccagttttg tgaatgaaga
5101 tggcgtcgaa tgacgccgct ccatctaatg atggtgctgc tggtctcgta ccagagggca
5161 acaacgagac ccttccccta gaaccagttg cgggcgcagc tatagccgca cccgtcactg
5221 gccaaaataa cataattgac ccctggatta gaacaaattt tgtgcaagca ccaaatggag
5281 agttcacagt gtcacccaga aactctcctg gagaaatctt attaaactta gagttgggcc
5341 ctgatttgaa cccttatttg gctcatttgt caaggatgta caatgggtat gctggtggag
5401 tggaagttca ggttctcctg gcagggaacg cgttcactgc cgggaagatc ctcttcgccg
5461 ccgtcccgcc aaatttccca gtagaattct taagcccagc ccagatcaca atgctcccac
5521 atttaatagt agatgttagg actcttgaac caattatgat cccactccct gatgttagga
5581 atacattctt ccattatagt aaccagccta acagccgcat gagattagtg gctatgcttt
5641 ataccccact cagatctaat ggctcaggtg atgatgtctt tactgtctct tgcagggttt
5701 tgactaggcc tactcctgat tttgagttca cttacttagt gccaccttct gtcgaatcta
5761 aaactaagcc tttttcctta cctattttaa ccctttctga gctcacaaat tcgaggttcc
5821 cagtccccat cgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa
5881 atggcaggtg tacacttgat ggtgagttac aaggcacaac ccagttgctc ccatctggca
5941 tctgtgcatt cagaggacgg gtaacagcac aaattaacca acgtgacagg tggcacatgc
6001 aactgcaaaa ccttaatggt gcaacatatg acccaactga tgatgtgcca gccccgctgg
6061 gtacacctga cttcaagggc gtcgtgtttg ggatggtaag ccaaagaaat gtgggtaatg
6121 atgcgcctgg ctcaaccaga gcccaacagg cgtgggtttc aacctatagc ccccaatttg
6181 tccccaaatt aggttctgtc aatcttagaa ttagtgataa tgatgatttc caattccaac
6241 cgacaaaatt cacaccagtg ggcgtcaatg atgacgatga tggccacccg ttcagacaat
6301 gggaactacc aaactattca ggggagctta ccttgaatat gaatcttgcc cccccagttg
6361 ctccaaattt tcctggtgaa caattgttat tcttcagatc tttcgtgcca tgctcaggag
6421 gttacaacca aggtattatg gattgtctta ttccccaaga atggatccaa cacttctatc
6481 aggaatcagc accctcccag tcagacgtgg ccctaatcag gtatgtcaac cccgatacgg
6541 gacgtacact gtttgaagca aaattgcaca gatctggtta cattactgtg gttcactctg
6601 gagactatcc tcttgttgtt ccggctaatg gacactttag atttgattct tgggtaaatc
6661 agttttactc actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc
6721 tggggctttc attgcaggat tggcaggcga catgctcaca tcatctgtgg gctcccttgt
6781 gaacgcaggg gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca
6841 gtctgcttcc tttcagcatg ataaagagat gctccaagcg caggtgaggg caaccaagca
6901 gctgcaatct gaaatgatag ctctaaaaca gggggttttg gccgcaggcg gcttttcccc
6961 cactgatgca gcaaggggat ccattggtgc acccatgaca aaggtgcttg actggtctgg
7021 cactcgatac tgggcgccca attccacaaa gacaactggc tattcgggac aatttacctc
7081 ttcacctgtg catatgtcta gtccaagtgc tccacaatta aaacctgcaa agcctaggtc
7141 tctagctcct tcctcttctt ctagcagtgt ctatagtatg tatactcaat ctactcattt
7201 aacatctggc tcctctagta atgcttcttc tgcctccaca aaatcgacaa atttaagctc
7261 tggctcctct caaaacagaa cagcagagtg ggtaaatcaa cagagaagtc ttagcccttt
7321 tatgagtggt gcactcaaca tctcacatgt cacgccaccc tcaagtaggg cttccagttc
7381 tgggacggtc tcgaccgtgc ccaaggaagt tttggactcc tggacgtctg cgtttaacac
7441 acacagacag ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa
7501 agaaataatt ggctataatg tgatttcttt ctaaatttgg ctaatttgta tcttttt
//