aspsirna1799 details

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ASPsiRNA information siRNA Id:aspsirna1799
siRNA Name: M5
Mismatch information Wild siRNA (As strand 3'->5'):UUGUUGUUCAAACGGAGGAA
ASP-siRNA (As strand 3'->5'):UUUUUGUUCAAACGGAGGAA
Mismatch position in siRNA: U17G
Gene Information Gene Name keratin 6a (KRT6a)
Target Sequence (5'->3'):AGCGUGAACAGAUCAAGACCCUCAACAACAAGUUUGCCUCCUUCA
Wild allele (5'->3'):AACAACAAGUUUGCCUCCUU
Mutant allele (5'->3'):AAAAACAAGUUUGCCUCCUU
Position of siRNA on target gene: 511-530
Respective Gene/Protein Resources GenBank Accession:NM_005554.3
Cytogenic location:1p21.3
Chromosomal coordinates:1:94,994,731-95,007,412
UniProt ID:P02538
HUGO ID:6443
Reference SNp(RefSNP): rs59685571
Disease/Mutation information Target Mutation: c.513C>A,p.Asn171Lys
Matation type/variant: single nucleotide variant/synonymous variant
Mutation at gene level: NG_008298.1:g.5722C>A
Pathogenic status of mutation: Pathogenic
Disease:Pachyonychia congenita (PC)
Clinical Resources ClinVar ID:66589
KEGG disease ID:H00684
OMIM ID: 167200
COSMIC: KRT6a
DECIPHER: KRT6a
GeneTests: KRT6a
ASP siRNA details Mutant allele (5'->3'): AAAAACAAGUUUGCCUCCUU
ASP-siRNA (As strand 3'->5'):UUUUUGUUCAAACGGAGGAA
Percentage efficacy of ASP-siRNA for mutant allele:10
Wild allele (5'->3'): AACAACAAGUUUGCCUCCUU
ASP-siRNA (As strand 3'->5'):UUUUUGUUCAAACGGAGGAA
Percentage efficacy of ASP-siRNA for wild allele:23
Relative difference:-13
Wild siRNA details Wild allele (5'->3'): AACAACAAGUUUGCCUCCUU
Wild siRNA (As strand 3'->5'):UUGUUGUUCAAACGGAGGAA
Percentage efficacy of wild siRNA for wild allele:NA
Wild allele (5'->3'): AACAACAAGUUUGCCUCCUU
ASP-siRNA (As strand 3'->5'):UUUUUGUUCAAACGGAGGAA
Percentage efficacy of Wild sirna for mutant allele:NA
Relative difference :NA
General information Mismatch incorporated in siRNA/Target:siRNA
Cell-line used: 293 FT
Experimental technique used: Flourescence microscopy
Transfection method: Lipofectamine 2000
siRNA expression method: Qiagen
Post-transfection duration: 24 hours
Concentration used:800ng
Reference:17145926
Delivery method:Transfection
Article title:SiRNA-mediated selective inhibition of mutant keratin mRNAs responsible for the skin disorder pachyonychia congenita.
Authors:Hickerson RP, Smith FJ, McLean WH, Landthaler M, Leube RE, Kaspar RL.
Journal Reference:Ann N Y Acad Sci. 2006 Oct;1082:56-61.
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ASPsiRNA information siRNA Id:aspsirna1799
siRNA Name: siCD46
Mismatch information Wild siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Mismatch position in siRNA: A:G clash
Gene Information Gene Name Complement regulatory protein (CD46)
Target Sequence (5'->3'):GCCCCCAATATGTGAAAAG
Wild allele (5'->3'):CUUAUUGGAGAGAGCACGA
Mutant allele (5'->3'):CUUAUGGGAGAGAGCACGA
Position of siRNA on target gene: 779-797
Respective Gene/Protein Resources GenBank Accession:NM_002389.4
Cytogenic location:1q32.2
Chromosomal coordinates:1:207,925,382-207,968,860
UniProt ID:P15529
HUGO ID:6953
Reference SNp(RefSNP): rs12190959
Disease/Mutation information Target Mutation: c.104G>A, p.Cys35Tyr
Matation type/variant: single nucleotide variant/Missense variant
Mutation at gene level: NG_009296.1:g.9964G>A
Pathogenic status of mutation: Risk factor
Disease:Hemolytic uremic syndrome
Clinical Resources ClinVar ID:17049
KEGG disease ID:H00106, H0027
OMIM ID: 120920
COSMIC: CD46
DECIPHER: CD46
GeneTests: CD46
ASP siRNA details Mutant allele (5'->3'): CUUAUGGGAGAGAGCACGA
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Percentage efficacy of ASP-siRNA for mutant allele:16
Wild allele (5'->3'): CUUAUUGGAGAGAGCACGA
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Percentage efficacy of ASP-siRNA for wild allele:93
Relative difference:77
Wild siRNA details Wild allele (5'->3'): CUUAUUGGAGAGAGCACGA
Wild siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Percentage efficacy of wild siRNA for wild allele:93
Wild allele (5'->3'): CUUAUUGGAGAGAGCACGA
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Percentage efficacy of Wild sirna for mutant allele:16
Relative difference :77
General information Mismatch incorporated in siRNA/Target:siRNA
Cell-line used: HEK293
Experimental technique used: Dual luciferase reporter assay
Transfection method: Lipofectamine 2000
siRNA expression method: Dharmacon
Post-transfection duration: 24 hours
Concentration used:13nM
Reference:15781493
Delivery method:Transfection
Article title:A systematic analysis of the silencing effects of an active siRNA at all single-nucleotide mismatched target sites.
Authors:Du Q, Thonberg H, Wang J, Wahlestedt C, Liang Z.
Journal Reference:Nucleic Acids Res. 2005 Mar 21;33(5):1671-7. Print 2005. Erratum in: Nucleic Acids Res. 2005;33(11):3698.