aspsirna1815 details

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ASPsiRNA information siRNA Id:aspsirna1815
siRNA Name: Ds10/13
Mismatch information Wild siRNA (As strand 3'->5'):CGCGAAGUCCGUGAUGUUUAU
ASP-siRNA (As strand 3'->5'):CGCGAAGUCGGUCAUGUUUAU
Mismatch position in siRNA: G12C,C9G
Gene Information Gene Name Coagulation factor III (thromboplastin, tissue factor) (F3) /CD142
Target Sequence (5'->3'):AGGTGGCCGGCGCTTCAGGCACTACAAATACTGTGG
Wild allele (5'->3'):GCGCUUCAGGCACUACAAAUA
Mutant allele (5'->3'):GCGCUUCAGCCAGUACAAAUA
Position of siRNA on target gene: 313-333
Respective Gene/Protein Resources GenBank Accession:NM_001178096.1
Cytogenic location:1p21.3
Chromosomal coordinates:1:94,994,731-95,007,412
UniProt ID:Q99081
HUGO ID:3541
Reference SNp(RefSNP): rs26759878
Disease/Mutation information Target Mutation: c.489G>A,p.Arg163=
Matation type/variant: single nucleotide variant/synonymous variant
Mutation at gene level: NG_029366.1:g.13666G>A
Pathogenic status of mutation: Not provided
Disease:Malignant melanoma
Clinical Resources ClinVar ID:NA
KEGG disease ID:NA
OMIM ID: 134390
COSMIC: F3 /CD142
DECIPHER: F3 /CD142
GeneTests: F3 /CD142
ASP siRNA details Mutant allele (5'->3'): GCGCUUCAGCCAGUACAAAUA
ASP-siRNA (As strand 3'->5'):CGCGAAGUCGGUCAUGUUUAU
Percentage efficacy of ASP-siRNA for mutant allele:NA
Wild allele (5'->3'): GCGCUUCAGGCACUACAAAUA
ASP-siRNA (As strand 3'->5'):CGCGAAGUCGGUCAUGUUUAU
Percentage efficacy of ASP-siRNA for wild allele:NA
Relative difference:NA
Wild siRNA details Wild allele (5'->3'): GCGCUUCAGGCACUACAAAUA
Wild siRNA (As strand 3'->5'):CGCGAAGUCCGUGAUGUUUAU
Percentage efficacy of wild siRNA for wild allele:NA
Wild allele (5'->3'): GCGCUUCAGGCACUACAAAUA
ASP-siRNA (As strand 3'->5'):CGCGAAGUCGGUCAUGUUUAU
Percentage efficacy of Wild sirna for mutant allele:NA
Relative difference :NA
General information Mismatch incorporated in siRNA/Target:siRNA
Cell-line used: HaCaT
Experimental technique used: Northern blot
Transfection method: Lipofectamine 2000
siRNA expression method: Glen Research,PerSeptive Biosystems
Post-transfection duration: 48 hours
Concentration used:100nM
Reference:12527766
Delivery method:Transfection
Article title:Tolerance for mutations and chemical modifications in a siRNA.
Authors:Amarzguioui M, Holen T, Babaie E, Prydz H.
Journal Reference:Nucleic Acids Res. 2003 Jan 15;31(2):589-95.
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ASPsiRNA information siRNA Id:aspsirna1815
siRNA Name: siCD46
Mismatch information Wild siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Mismatch position in siRNA: C:U clash
Gene Information Gene Name Complement regulatory protein (CD46)
Target Sequence (5'->3'):GCCCCCAATATGTGAAAAG
Wild allele (5'->3'):CUUAUUGGAGAGAGCACGA
Mutant allele (5'->3'):CUUAUUGGAUAGAGCACGA
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'): CUUAUUGGAUAGAGCACGA
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Percentage efficacy of ASP-siRNA for mutant allele:0
Wild allele (5'->3'): CUUAUUGGAGAGAGCACGA
ASP-siRNA (As strand 3'->5'):GAAUAACCUCUCUCGUGCU
Percentage efficacy of ASP-siRNA for wild allele:93
Relative difference:93
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:0
Relative difference :93
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.