Typing tool
|
|
|
|
|
|
Typing tool
|
Complete norovirus genomes
| PQ373122 | GII.17 | |
|
|---|---|---|---|
| GII.P17 |
ORF1: 5..5113
ORF2: 5094..6716
ORF3: 6716..7495
LOCUS PQ373122 7549 bp RNA linear VRL 30-SEP-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV15-47, complete genome.
ACCESSION PQ373122
VERSION PQ373122.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7549)
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..7549
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV15-47"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="20-Nov-2015"
/note="genotype: GII.17"
gene 5..5113
/gene="ORF1"
CDS 5..5113
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05687.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR
PKQPPPGETKQIQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVV
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVERGHVLGVHKPPA
AISLAKIEITPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFKPYQDWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKSV
KTLDELKQAIKNISIKKCQIVYNGRTYTMESDGRGKVVVEKVQNATVQTNNELVGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNISNLWSKPPIEEGDEPEDR
GGCPKPRDEDDLTIDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNERIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITEAFGVPINQIQIHKSGEFCRLRFPKPIRTDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYLYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPNVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGHPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDELKAHCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
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="XHF05688.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGNDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQMLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
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="XHF05689.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQGVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNAPQSKPAKPRSLAPSSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 gtgaatgaag atggcgtcta acgacgcttc cgctgccgtt gctggcaaaa acaacaacaa
61 cgacaaggaa aaatcttcaa gtgacagctt gtttgctaac atgtctgtca cttttaagaa
121 agccctcggg gcgcggccta aacaaccgcc cccgggagaa acaaaacaaa tacaaaaacc
181 accaaggcca ccgacaccgg aattggtgaa gagaatacct ccacccccac ccaatggcga
241 ggatgaacca gggatagtgt acaaggtggg agagggtgtg tctgggctgc ccgacctaac
301 aactgtggta 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 ctacactccc cagtatttga tagatccagg aactcttaag aacttgagtg gagagacttt
601 cccatacacg gcctttgaca acaactgtta tgccttctgt tgttgggtcc tagacctcaa
661 cgactcctgg cttagcagga gaatgatcca aagaacaact ggattcttca aaccttatca
721 ggattggaac agaaaaccct taccaaccat ggatgaaccg aaaatcaaga aggccgcgaa
781 tgctgtccta tgcgctctct cctcactctt cactagaccc attaaggata tcattggaaa
841 gcttcgacca ctgaacattc ttaatatact ggcaacctgc gattggactt ttgcaggcat
901 agtggaatcc ttgatccttc ttgctgaact ctttggggtg ttctggacgc ccccagatgt
961 gtctgcgatg attgctccct tactcggtga ctacgagatg caaggccccg aagacctggc
1021 cgtggaactt gtgcccgtgg tgatgggagg aataggtttg gtgttaggat tcaccaaaga
1081 aaagatcggc aagatgcttt catcagctgc gaccacactt agggcctgca aggatctagg
1141 atcttatgga ttggagatac tcaaattggt catgaagtgg ttcttcccca agaaggagga
1201 ggctaacgaa ctagccatgg tgagggccat tgaggacgca gtcctggatt tggaggcaat
1261 agaaaacaat cacatgacca cccttctcaa ggataaagac agcctggcca catacatgag
1321 gactcttgac ttggaagaag agaaagcaag gaaactgtca accaaatcgg cgtcacctga
1381 catcgtgggt acaataaacg cattattggc taggatagca gccgccaggt cactggtcca
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 agcaacccta tacaggacgc
1681 actaaggctc caagaattgg ctgacacctg tcctctgacc ctaaattgtg atagaattga
1741 aaacaaaggg aaagtgttcg acagtgatgc cataattata acaaccaacc ttgcaaaccc
1801 agcaccacta gactatgtca actttgaggc ctgctctaga cgcatagact tcttggtgta
1861 tgcagacgca cctgacattg agaaggctaa gcgtgacttc cctggtcaac cagatatgtg
1921 gaaagaccat ttcagaccag acttctcaca cattaaactt cagctggcac cacagggagg
1981 atttgacaaa aatggcaaca ccccacatgg taaaggtgtg gtgaagtccc tgacgattgg
2041 ttctctgatc gccagggcct ccggcttgct ccacgagaga atggatgaat tcgagctcca
2101 aggctctgac ctgccaacct tcaattttga ccgcaacaaa gtcgccgcct tcagacaatt
2161 agcagctgaa aacaaatatg gtcttatgga cacactgagg gtcggcaacc aactgaaaag
2221 tgttaagacc ctggatgagc tgaagcaggc cataaagaac atcagcatca agaagtgtca
2281 gatagtgtat aatggacgca cctataccat ggaatctgat gggaggggca aggttgtggt
2341 tgaaaaggta caaaacgcaa cagttcaaac caacaatgaa cttgtagggg cgctccacca
2401 cctgagatct gcaaggataa gatactatgt taaatgtttc caagaagcca tttactctct
2461 actccaaatt gctggtgcag ccttcgtcac ctcacgcatc gtgaggcgca tgaacatatc
2521 aaacctctgg tcgaagccac ccatcgagga gggtgatgag cctgaagaca gaggaggatg
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 caggtactat gaagagcttg ccattgctaa
2821 ggccactgag gaggacttct gtgaggagga ggagatcaaa atccgccaga gaatcttccg
2881 acccaccagg aagcagcgga aagaggaaag ggccacgctt gggcttgtca caggatcgga
2941 aatcagaaag aggaatccag atgactttaa accaaaagga aaattgtggg ctgatgacaa
3001 caggagcgtg gattacaatg agaggataga ttttgaggct cccccgagtg tttggtctag
3061 gatagtcaac tttggcacag gctggggatt ctgggtttct ccaagtctct ttataacttc
3121 aacacacgtc ataccaaaag gaatcactga ggcctttgga gttcccataa accaaatcca
3181 aattcacaaa tctggagaat tttgccgctt gcggtttcca aagccaatta gaacagacgt
3241 gagtgggatg atcttggaag agggcgcccc tgaaggcact gttgtgtcta ttctcatcaa
3301 aaggacaaca ggggagctga tgcctcttgc agtcagaatg gggactcatg ccacaatgaa
3361 aatccaaggt agaacggtgg gtggtcagat gggtatgctt ctcactggct caaatgctaa
3421 aagcatggat ctaggcacaa cgccaggtga ctgcggatgt ccatacttat 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 caggttatga gagaccaact
3781 taaacctttt acagagccca gagggaagcc accaaaccca aatgtcttag agtcagcaaa
3841 gaagactatc atcaatgttc tggaacaaac cattgacccc cctcaaaaat ggtcatatgc
3901 ccaagcttgt gcatccctcg acaagacaac ctccagtgga cacccgcacc acgtccggaa
3961 gaatgactat tggagtggtg aatccttcac aggaaaactt gcagatcagg cgtcaaaagc
4021 aaacctcatg tatgaggaag gcaagcacat gcaaccagtt tacaccgcag cactcaaaga
4081 cgagctcgtg aaaactgaca aaatttatgg caaaatcaag aaaagactcc tgtggggttc
4141 tgacctctcc acaatgattc gatgcgccag agcatttggt ggtctcatgg atgaactcaa
4201 agcacattgt attacactcc ctatcagagt tggtatgaat atgaatgaag atggtcccat
4261 aatatttgag aaacactcca ggtacaggta ccactatgat gctgattact cccgctggga
4321 ctccacacaa cagcgggcag tgctggaagc ggcacttgaa atcatggtaa gattttctgc
4381 tgagccacag ctggcacaaa tagtggcaga ggacctgctg tcaccaagtg tggttgatgt
4441 gggcgatttc aaaatcgcta tcaatgaagg tctaccatct ggcgtgcctt gcacctcaca
4501 atggaattct attgcccact ggttacttac cttgtgtgcc ctttctgaag tgacaggatt
4561 aggtcctgac atcatacaag ctaactccat gtactccttc tatggtgatg atgagattgt
4621 gagtacagac ataaaattgg acccagagaa attgaccgca aagctcaaag aatatggtct
4681 taaacccact cggcccgaca aaactgaggg gccgttggtg attagtgagg acctgaatgg
4741 gttgactttc ctccgccgaa cagtcacccg tgatccagca ggttggtttg gaaagttgga
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 gagaaatttt attaaactta gagttgggcc
5341 ctgatttgaa cccttatttg gctcatttgt caaggatgta caatgggtat gctggtggag
5401 tggaagttca ggttctcctg gcagggaacg cgttcactgc cggaaagatc ctcttcgccg
5461 ccgtcccgcc aaatttccca gtggaattct taagcccagc ccagatcaca atgctcccac
5521 atttaatagt agatgttagg actcttgaac caattatgat cccactccct gatgttagga
5581 atacattctt ccattatagt aaccagccta atagccgcat gagattagtg gctatgctct
5641 ataccccact cagatctaat ggctcaggtg atgatgtctt tactgtctct tgcagggttt
5701 tgactaggcc tactcctgat tttgagttca cttatttagt gccaccttct gttgaatcta
5761 aaactaagcc tttttcctta cctattttaa ccctttctga gctcacaaat tcgaggttcc
5821 cagtccccat cgattcgctt ttcaccgccc agaataatgt gttgcaggtg cagtgtcaaa
5881 atggcaggtg cacacttgat ggtgagttac aaggcacaac ccagttgctc ccatctggca
5941 tctgtgcatt cagaggacgg gtgacagcac aaattaacca acgtgacagg tggcacatgc
6001 aactgcaaaa cctcaatggt acaacatatg acccaactga tgatgtgcca gccccgctgg
6061 gtacacctga cttcaagggc gtcgtgtttg ggatggtaag ccaaagaaat gtgggtaatg
6121 atgcgcctgg ctcaaccaga gcccaacagg cgtgggtttc aacctatagc ccccaatttg
6181 tccccaaatt aggttctgtt aatcttagaa ttagtgataa tgatgatttc caattccagc
6241 caacaaaatt cacaccagtg ggcgtcaatg atgacgatga tggccacccg ttcagacaat
6301 gggaactacc aaactattca ggggagctta ccttgaatat gaatcttgcc cccccagttg
6361 ctccaaattt tcctggtgaa caaatgttat tcttcagatc tttcgtgcca tgctcaggag
6421 gttacaacca aggtattata gattgtctta ttccccaaga gtggatccaa cacttctatc
6481 aggaatcagc accctcccag tcagacgtgg ccctaatcag gtatgtcaac cccgacacgg
6541 gacgtacact gtttgaagca aaattgcaca gatctggtta cattactgtg gctcactctg
6601 gagactatcc tcttgttgtt ccggctaatg gacattttag atttgattct tgggtaaatc
6661 agttttactc actcgcccca atgggaactg ggaatgggcg aaggagggct cagtaatggc
6721 tggggctttc attgcaggat tggcaggcga catgctcacg tcatctgtgg gctcccttgt
6781 gaacgcaggg gcaaacgcca tcaaccaaaa gatagacttt gaaaacaaca aacaactcca
6841 gtctgcttcc tttcagcatg ataaagagat gctccaagcg caggtgaggg caaccaagca
6901 gctgcaatct gaaatgatag ccctaaaaca gggggttttg gccgcaggcg gcttttcccc
6961 cactgatgca gcaaggggat ccattggtgc acccatgaca aaggtgcttg actggtctgg
7021 cactcgatac tgggcgccca attccacaaa gacaactggc tattcgggac aattcacctc
7081 ttcacctgtg catatgtcta gcccgaatgc tccacaatca aaacctgcaa agcctaggtc
7141 tctagctcct tcctcttctt ctagcagtgt ctatagtatg tatactcaat ctactcattt
7201 aacatctggc tcttctagta atgcttcttc tgcctccaca aaattgacaa atttaagctc
7261 tggctcctct caaaacagaa cagcagagtg ggtaaatcaa cagagaagtc ttagcccttt
7321 catgagtggc gcacttaaca tctcacatgt cacgccaccc tcaagtaggg cttccagttc
7381 tgggacggtc tcgaccgtgc ccaaggaagt tttggactcc tggacgtctg cgtttaacac
7441 acacagacag ccgctcttcg cacacctcag agtgaggggg gagtcacgtg tttagtgaaa
7501 agaaataatt ggctataatg tgatttcttt ctaaatttgg ctaatttgt
//