Typing tool
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Typing tool
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Complete norovirus genomes
| PQ373128 | GII.17 | |
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| GII.P17 |
ORF1: 1..5109
ORF2: 5090..6712
ORF3: 6712..7491
LOCUS PQ373128 7507 bp RNA linear VRL 30-SEP-2024
DEFINITION Norovirus GII isolate RIVM-NL-NoV20-05 nonstructural polyprotein
(ORF1), VP1 (ORF2), and VP2 (ORF3) genes, complete cds.
ACCESSION PQ373128
VERSION PQ373128.1
KEYWORDS .
SOURCE Norovirus GII
ORGANISM Norovirus GII
Viruses; Riboviria; Orthornavirae; Pisuviricota; Pisoniviricetes;
Picornavirales; Caliciviridae; Norovirus; Norovirus norwalkense.
REFERENCE 1 (bases 1 to 7507)
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..7507
/organism="Norovirus GII"
/mol_type="genomic RNA"
/isolate="RIVM-NL-NoV20-05"
/isolation_source="feces"
/host="Homo sapiens"
/db_xref="taxon:122929"
/geo_loc_name="Netherlands"
/collection_date="27-Jan-2020"
/note="genotype: GII.17"
gene 1..5109
/gene="ORF1"
CDS 1..5109
/gene="ORF1"
/codon_start=1
/product="nonstructural polyprotein"
/protein_id="XHF05705.1"
/translation="MKMASNDASAAVAGKNNNNDKEKSSSDSLFANMSVTFKKALGAR
PKQPPPGETKQTQKPPRPPTPELVKRIPPPPPNGEDEPGIVYKVGEGVSGLPDLTTVA
QPDAQNTAYSVPPLSQREVGEAKEPLPGSILEMWDGEIYHYGLYVEKGHVLGVHKPPA
AISLAKIEMTPLSLYWRVVYTPQYLIDPGTLKNLSGETFPYTAFDNNCYAFCCWVLDL
NDSWLSRRMIQRTTGFFKPYQVWNRKPLPTMDEPKIKKAANAVLCALSSLFTRPIKDI
IGKLRPLNILNILATCDWTFAGIVESLILLAELFGVFWTPPDVSAMIAPLLGDYEMQG
PEDLAVELVPVVMGGIGLVLGFTKEKIGKMLSSAATTLRACKDLGSYGLEILKLVMKW
FFPKKEEANELAMVRAIEDAVLDLEAIENNHMTTLLKDKDSLATYMRTLDLEEEKARK
LSTKSASPDIVGTINALLARIAAARSLVHKAKEELSSRQRPVVVMISGRPGIGKTHLA
RELAKKVASTLSGDQRIGLVPRNGVDHWDAYKGERVVLWDDYGMSNPIQDALRLQELA
DTCPLTLNCDRIENKGKVFDSDAIIITTNLANPAPLDYVNFEACSRRIDFLVYADAPD
IEKAKRDFPGQPDMWKDHFRPDFSHIKLQLAPQGGFDKNGNTPHGKGVVKSLTIGSLI
ARASGLLHERMDEFELQGSDLPTFNFDRNKVAAFRQLAAENKYGLMDTLRVGNQLKNV
KTLDELKQAIKNISIKKCQIVYNGCTFTMESDGKGKVVVEKVQNATVQTNNELAGALH
HLRSARIRYYVKCFQEAIYSLLQIAGAAFVTSRIVRRMNVSNLWSRPPIEEGDELEDR
GGCPKPRDEDDLTVDSRDIKVEGKKGKNKSGRGKKHTAFSSKGLSDEEYDEYKRIREE
RNGKYSIEEYLQDRDRYYEELAIAKATEEDFCEEEEIKIRQRIFRPTRKQRKEERATL
GLVTGSEIRKRNPDDFKPKGKLWADDNRSVDYNEKIDFEAPPSVWSRIVNFGTGWGFW
VSPSLFITSTHVIPKGITDAFGVPINQIQIHKSGEFCRLRFPKPIRPDVSGMILEEGA
PEGTVVSILIKRTTGELMPLAVRMGTHATMKIQGRTVGGQMGMLLTGSNAKSMDLGTT
PGDCGCPYIYKRGNDLVVIGVHTAAARGGNTVICATQGSEGEATLEGGDNKGTYCGAP
ILGPGNAPKLSTKTKFWRSSNAPLPPGTYEPAYLGGRDPRVKGGPSLQQVMRDQLKPF
TEPRGKPPNPSVLESAKKTIINVLEQTIDPPQKWSYAQACASLDKTTSSGYPHHVRKN
DYWSGESFTGKLADQASKANLMYEEGKHMQPVYTAALKDELVKTDKIYGKIKKRLLWG
SDLSTMIRCARAFGGLMDEFKANCITLPIRVGMNMNEDGPIIFEKHSRYRYHYDADYS
RWDSTQQRAVLEAALEIMVRFSAEPQLAQIVAEDLLSPSVVDVGDFKIAINEGLPSGV
PCTSQWNSIAHWLLTLCALSEVTGLGPDIIQANSMYSFYGDDEIVSTDIKLDPEKLTA
KLKEYGLKPTRPDKTEGPLVISEDLNGLTFLRRTVTRDPAGWFGKLDQNSILRQLYWT
RGPNHEDPSETMIPHAQRPVQLMALLGESSLHGPSFYSKVSKLVISELKEGGMDFYVP
RQESMFRWMRFSDLSTWEGDRNLAPSFVNEDGVE"
mat_peptide 1..999
/gene="ORF1"
/product="p48"
mat_peptide 1000..2097
/gene="ORF1"
/product="NTPase"
mat_peptide 2098..2634
/gene="ORF1"
/product="p22"
mat_peptide 2635..3033
/gene="ORF1"
/product="VPg"
mat_peptide 3034..3576
/gene="ORF1"
/product="Pro"
mat_peptide 3577..5106
/gene="ORF1"
/product="RdRp"
gene 5090..6712
/gene="ORF2"
CDS 5090..6712
/gene="ORF2"
/note="major capsid protein"
/codon_start=1
/product="VP1"
/protein_id="XHF05706.1"
/translation="MKMASNDAAPSNDGAAGLVPEGNNETLPLEPVAGAAIAAPVTGQ
NNIIDPWIRTNFVQAPNGEFTVSPRNSPGEILLNLELGPDLNPYLAHLSRMYNGYAGG
VEVQVLLAGNAFTAGKILFAAVPPNFPVEFLSPAQITMLPHLIVDVRTLEPIMIPLPD
VRNTFFHYSNQPNSRMRLVAMLYTPLRSNGSGDDVFTVSCRVLTRPTPDFEFTYLVPP
SVESKTKPFSLPILTLSELTNSRFPVPIDSLFTAQNNVLQVQCQNGRCTLDGELQGTT
QLLPSGICAFRGRVTAQINQRDRWHMQLQNLNGTTYDPTDDVPAPLGTPDFKGVVFGM
VSQRNVGTDAPGSTRAQQAWVSTYSPQFVPKLGSVNLRISDNDDFQFQPTKFTPVGVN
DDDDGHPFRQWELPNYSGELTLNMNLAPPVAPNFPGEQLLFFRSFVPCSGGYNQGIID
CLIPQEWIQHFYQESAPSQSDVALIRYVNPDTGRTLFEAKLHRSGYITVAHSGDYPLV
VPANGHFRFDSWVNQFYSLAPMGTGNGRRRAQ"
gene 6712..7491
/gene="ORF3"
CDS 6712..7491
/gene="ORF3"
/note="minor structural protein; small basic protein"
/codon_start=1
/product="VP2"
/protein_id="XHF05707.1"
/translation="MAGAFIAGLAGDMLTSSVGSLVNAGANAINQKIDFENNKQLQSA
SFQHDKEMLQAQVRATKQLQSEMIALKQEVLAAGGFSPTDAARGSIGAPMTKVLDWSG
TRYWAPNSTKTTGYSGQFTSSPVHMSSPNALQPKPAKPRSLASPSSSSSVYSMYTQST
HLTSGSSSNASSASTKLTNLSSGSSQNRTAEWVNQQRSLSPFMSGALNISHVTPPSSR
ASSSGTVSTVPKEVLDSWTSAFNTHRQPLFAHLRVRGESRV"
ORIGIN
1 atgaagatgg cgtctaacga cgcttccgct gccgttgctg gcaaaaacaa caacaacgac
61 aaggaaaaat cttcaagtga cagcttgttt gctaacatgt ctgtcacttt taagaaagcc
121 ctcggggcgc ggcctaaaca accgcccccg ggagaaacaa aacaaacaca aaaaccacca
181 aggccaccga caccggaatt ggtgaagaga atacctccac ccccacccaa tggcgaggat
241 gaaccgggga tagtgtacaa ggtgggagag ggtgtgtctg ggctgcccga cctaacaact
301 gtggcacaac ctgacgcaca aaacacagct tatagtgttc ccccacttag ccagagagaa
361 gtcggcgaag ctaaagaacc gctgcctggc tccattctgg aaatgtggga tggtgagatc
421 taccactatg ggctgtatgt tgagaagggg catgtgctcg gagtacacaa accacctgct
481 gcaataagcc ttgccaaaat cgaaatgaca ccgctgtctc tctactggag agtggtctac
541 actccccagt atttgataga tccaggaact cttaagaact tgagtggaga gaccttccca
601 tacacggcct tcgacaacaa ctgttatgcc ttctgttgtt gggtcctaga cctcaacgac
661 tcctggctta gcaggagaat gatccagaga acaactggat tcttcaaacc ttaccaggtt
721 tggaacagaa aacccttacc aaccatggat gaaccgaaaa tcaagaaggc cgcgaatgct
781 gtcctatgcg ctctctcctc actattcact agacccatta aggacatcat tggaaagctt
841 agaccattga acattcttaa tatactggca acctgcgatt ggacttttgc aggcatagtg
901 gaatccttga tccttcttgc tgaactcttt ggggtgttct ggacaccccc agatgtgtct
961 gcgatgattg ctcccttact cggtgactac gagatgcaag gccccgaaga cctggccgtg
1021 gaacttgtgc ccgtggtgat gggaggaata ggcttggtgt taggattcac caaagaaaag
1081 atcggcaaga tgctttcatc agctgcgacc acacttaggg cctgcaagga tctgggatct
1141 tatggattgg agatactcaa attggtcatg aagtggttct tccccaagaa ggaggaggct
1201 aacgaactgg ccatggtgag ggccattgag gatgcagtcc tggatttgga ggctatagaa
1261 aacaatcaca tgaccaccct tcttaaggat aaagacagcc tggccacata catgaggact
1321 cttgatttgg aagaagagaa agcaaggaaa ctgtcaacca aatcggcttc acctgacatc
1381 gtgggtacaa taaacgcatt attggctagg atagcagccg ccaggtcact ggtccacaag
1441 gctaaggagg agctctcgag cagacaaaga cctgttgttg taatgatatc aggtagacca
1501 ggtataggaa agacccatct agccagagag ctagccaaga aagttgcgtc aacactgtca
1561 ggagaccaaa ggattggact ggtacctaga aatggcgtcg accattggga cgcttacaaa
1621 ggagaaaggg tggttctgtg ggatgattac ggtatgagca accctataca ggacgcactg
1681 aggctccaag aattggccga cacctgtcct ctgaccctaa attgtgatag gattgaaaac
1741 aaagggaaag tgttcgacag tgatgccata attataacaa ccaaccttgc aaacccagca
1801 ccactagact atgtcaactt cgaggcctgc tctagacgca tagacttctt ggtgtatgca
1861 gacgcacctg acattgagaa ggctaagcgt gacttccctg gccaaccaga catgtggaaa
1921 gaccatttca gaccagactt ctcacacatt aaactccagc tggcaccaca gggaggtttt
1981 gacaaaaatg gtaacacccc acatggtaaa ggtgtggtga agtccctgac gattggttct
2041 ctaatcgcca gggcctccgg cttgctccac gagagaatgg atgaattcga actccaagga
2101 tctgacctgc caaccttcaa ttttgaccgc aacaaagtcg ccgccttcag acaattagca
2161 gctgaaaaca aatatggtct catggacaca ctgagggtcg gcaaccaact gaaaaatgtt
2221 aagaccctgg acgagctgaa gcaggccata aagaacatca gtatcaagaa gtgtcagata
2281 gtgtacaatg ggtgcacttt caccatggaa tctgatggga agggcaaggt tgtggttgaa
2341 aaggtacaaa acgcaacagt tcaaaccaac aatgaacttg caggggcgct ccaccacctg
2401 agatctgcaa ggataaggta ctatgttaaa tgtttccaag aagccattta ctctctactc
2461 caaattgctg gtgcagcctt cgtcacctca cgcatcgtga ggcgcatgaa cgtatcaaac
2521 ctctggtcga ggccacccat cgaggagggt gatgagctcg aagacagagg agggtgcccc
2581 aagcccaggg atgaagatga cctcactgtt gactccagag atattaaagt ggaagggaag
2641 aagggcaaga acaagtctgg ccggggcaag aaacacacag ccttctcttc caagggcctc
2701 agtgatgaag agtacgatga gtacaagaga atcagagagg agaggaatgg caaatactca
2761 atagaggaat acctccaaga tagggacaga tactatgagg agcttgccat tgctaaggcc
2821 actgaggagg acttctgtga ggaggaggag atcaaaatcc gccagagaat cttccgaccc
2881 accaggaagc agcggaaaga ggaaagggcc acgcttgggc ttgtcacagg atcggaaatc
2941 agaaagagaa atccagatga cttcaaacca aaaggaaaat tgtgggctga tgacaacagg
3001 agcgtggatt acaatgagaa gatagatttt gaggctcccc cgagtgtttg gtctaggata
3061 gtcaactttg gcacaggctg gggattctgg gtttctccaa gtctctttat aacttcaaca
3121 cacgtcatac caaaaggaat cactgatgcc tttggagtgc ccataaacca aatccaaatt
3181 cacaaatctg gagaattttg ccgcttgcgg tttccaaaac caattagacc agatgtgagt
3241 gggatgatct tggaagaggg cgcccctgaa ggcactgttg tgtccattct catcaaaagg
3301 acaacagggg agctgatgcc tcttgcggtc agaatgggga ctcatgccac aatgaaaatc
3361 caaggtagaa cggtgggtgg tcagatgggt atgcttctca ctggttcaaa tgctaaaagc
3421 atggatctag gcacaacacc aggtgactgc ggatgtccat acatatacaa aaggggcaat
3481 gaccttgtgg tcattggggt gcacactgca gcagcacgtg gaggcaacac ggtcatatgt
3541 gccacacagg gaagtgaagg tgaagccact cttgaaggag gtgacaacaa gggtacctat
3601 tgtggagccc ccattttggg acctggcaac gcaccaaaat tgagcacaaa gacaaaattc
3661 tggagatcct ctaacgcacc gcttccccca ggtacttatg aaccagcata ccttggtggg
3721 agagacccac gcgtgaaggg aggcccgtct ctgcaacaag ttatgagaga ccagcttaaa
3781 ccttttacag agcccagagg gaaaccacca aacccaagtg tcttagagtc agcaaagaag
3841 actatcatca atgttctgga acaaaccatc gacccccctc aaaagtggtc atatgcccaa
3901 gcttgtgcat ccctcgacaa gacaacctcc agtggatacc cgcaccacgt ccggaagaat
3961 gactattgga gtggtgaatc cttcacagga aaacttgcag atcaggcttc aaaagcaaat
4021 ctcatgtatg aggaaggcaa gcacatgcaa ccagtttaca ccgcagcact caaagacgag
4081 ctcgtgaaaa ctgacaaaat ttatggcaaa atcaagaaaa gactcctgtg gggttctgac
4141 ctctccacaa tgattcgatg tgccagagca tttggtggtc tcatggatga attcaaagca
4201 aactgtatta cactccctat cagagttggt atgaatatga atgaagatgg tcccataata
4261 tttgagaaac actccaggta caggtatcac tatgatgctg attactcccg ctgggactcc
4321 acgcaacagc gggcagtgct ggaagcggca cttgaaatca tggtgagatt ttctgctgag
4381 ccacagctgg cacaaatagt ggcagaggac ctgctgtcac caagtgtggt tgatgtgggc
4441 gatttcaaaa tcgctatcaa tgaaggccta ccgtctggcg tgccctgcac ctcacaatgg
4501 aattctattg cccactggtt acttactttg tgtgcccttt ctgaagtgac aggattaggt
4561 cctgacatca tacaagccaa ctctatgtac tctttctatg gtgatgatga gattgtgagc
4621 acagacataa aattggaccc agagaaactg actgcaaagc tcaaagaata tggcctcaaa
4681 cccactcggc ccgacaaaac tgaggggccg ttggtgatta gtgaggacct aaatgggttg
4741 actttcctcc gccgaacagt cacccgtgat ccagcaggtt ggtttggaaa gttggaccaa
4801 aactccatcc tcaggcagct gtactggaca agaggaccca accacgaaga ccccagtgag
4861 accatgatac cacacgcaca aagacctgtg cagctcatgg cactactggg agaatcctcc
4921 ctacatgggc cctcatttta cagtaaggtt agcaaattag ttatatctga acttaaagag
4981 ggaggaatgg atttttatgt gcccagacaa gagtcaatgt tcagatggat gaggttctca
5041 gatctaagca catgggaggg cgatcgcaat ctggctccca gttttgtgaa tgaagatggc
5101 gtcgaatgac gccgctccat ctaatgatgg tgctgctggt ctcgtaccag agggcaacaa
5161 cgagaccctt cccctagaac cagttgcggg cgcagctata gccgcacccg tcactggtca
5221 aaataacata attgacccct ggattagaac aaattttgtg caagcaccaa atggagagtt
5281 cacagtgtca cctagaaact ctcctggaga aattttatta aatttagaat tgggccctga
5341 tttgaatcct tatttggctc atttgtcaag aatgtacaat gggtatgctg gcggagtgga
5401 agttcaggtt ctcctggcag ggaacgcgtt cacagccggg aagatcctct tcgccgccgt
5461 cccgccaaat ttcccagtgg aattcttaag cccagcccag atcacaatgc tcccacactt
5521 aatagtagat gttaggactc ttgaaccaat tatgatccca ctccctgatg ttaggaatac
5581 attcttccac tatagtaacc agcctaacag ccgcatgaga ttagtggcta tgctctatac
5641 cccacttaga tctaatggct caggtgatga tgtctttacc gtctcttgca gggttttgac
5701 taggcctact cctgattttg agttcactta tttagtgcca ccttctgttg aatctaaaac
5761 taagcctttt tccttaccta ttttaaccct ttctgagctc acaaattcga ggttcccagt
5821 ccccatcgat tcgcttttca ccgcccagaa taatgtgttg caggttcagt gccaaaatgg
5881 caggtgtaca cttgatggtg agttgcaagg cacgacccag ttgctcccat ctggcatctg
5941 tgcattcaga ggacgggtga cagcacaaat caaccaacgt gacaggtggc acatgcaact
6001 gcaaaacctc aatggtacaa catatgaccc aactgatgat gtgccagccc cgctgggtac
6061 acctgacttc aagggcgtcg tgtttgggat ggtaagccaa agaaatgtgg gcactgatgc
6121 gcctggctca accagagccc aacaggcgtg ggtttcaacc tatagccccc agtttgtccc
6181 caaattaggt tctgtcaatc tcagaattag tgataatgat gatttccaat ttcagccgac
6241 aaaattcaca ccagtgggcg ttaatgatga tgatgatggc cacccgttca gacaatggga
6301 actaccaaac tattcagggg agcttacctt gaatatgaat cttgcccctc cagttgctcc
6361 aaattttcct ggtgaacagt tgctattctt cagatctttc gtgccatgtt caggaggtta
6421 taaccaaggt attatagact gtttgattcc ccaagaatgg atccaacact tctatcagga
6481 atcagcaccc tcccagtcag atgtggccct aatcaggtat gtcaaccctg acacgggacg
6541 tacattgttt gaagcaaaat tgcacaggtc tggttatatt actgtggctc attctggaga
6601 ctatcctctt gttgttccgg ctaatggaca ctttagattt gattcttggg taaatcagtt
6661 ttactcactc gccccaatgg gaactgggaa tgggcgaagg agggcccagt aatggctggg
6721 gctttcattg caggattggc aggcgacatg ctcacgtcat ctgtgggctc ccttgtgaac
6781 gcaggggcaa acgccatcaa ccaaaagata gactttgaaa acaacaaaca actccagtct
6841 gcttcctttc agcatgataa agagatgctc caagcgcagg tgagggcaac caagcagctg
6901 caatctgaaa tgatagccct aaaacaggag gttttggccg caggcggctt ttcccccact
6961 gatgcagcta ggggatccat tggtgcaccc atgacaaagg tgcttgactg gtctggcact
7021 cgatactggg cgcccaattc cacaaagaca actggctact cggggcaatt tacctcttcg
7081 cctgtgcaca tgtctagtcc aaatgcttta caaccaaaac ctgcaaagcc taggtctcta
7141 gcttctccct cttcttctag tagtgtctat agtatgtaca ctcaatctac tcatttaaca
7201 tctggctctt ctagtaatgc ttcttctgcc tctacaaaat tgacaaactt aagctctggc
7261 tcctctcaaa acagaacagc agagtgggta aatcaacaga gaagtcttag ccctttcatg
7321 agtggtgcgc ttaacatctc acatgtcacg ccaccctcaa gtagggcttc cagctctggg
7381 acggtctcga ccgtgcccaa ggaagttttg gactcctgga cgtctgcgtt taacacacac
7441 agacagccgc tcttcgcaca cctcagagtg aggggggagt cacgtgttta gtgaaaagaa
7501 ataattg
//