aspsirna2201 details

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ASPsiRNA information siRNA Id:aspsirna2201
siRNA Name: PM4
Mismatch information Wild siRNA (As strand 3'->5'):GUCGUCGUCGUCGUCGUCG
ASP-siRNA (As strand 3'->5'):GUCGUCGUAAAAGUCGUCG
Mismatch position in siRNA: A8C,A9U,A10G,A11C
Gene Information Gene Name Atrophin-1 (ATN-1)
Target Sequence (5'->3'):CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCATCACG
Wild allele (5'->3'):CAGCAGCAGCAGCAGCAGC
Mutant allele (5'->3'):CAGCAGCAUUUUCAGCAGC
Position of siRNA on target gene: 1699-1717,1720-1738
Respective Gene/Protein Resources GenBank Accession:NM_001007026.1
Cytogenic location:12p13.31
Chromosomal coordinates:12:7,033,625-7,051,483
UniProt ID:P54259
HUGO ID:NA
Reference SNp(RefSNP): rs19392293
Disease/Mutation information Target Mutation: c.1462_1464CAG(90_93)
Matation type/variant: STR short tandem repeat (microsatellite) variation
Mutation at gene level: NG_008047.1:g.17267_17269CAG(90_93)
Pathogenic status of mutation: Pathogenic
Disease:Dentatorubral-pallidoluysian atrophy (DRPLA)
Clinical Resources ClinVar ID:38905
KEGG disease ID:K05626
OMIM ID: 125370
COSMIC: ATN-1
DECIPHER: ATN-1
GeneTests: ATN-1
ASP siRNA details Mutant allele (5'->3'): CAGCAGCAUUUUCAGCAGC
ASP-siRNA (As strand 3'->5'):GUCGUCGUAAAAGUCGUCG
Percentage efficacy of ASP-siRNA for mutant allele:80
Wild allele (5'->3'): CAGCAGCAGCAGCAGCAGC
ASP-siRNA (As strand 3'->5'):GUCGUCGUAAAAGUCGUCG
Percentage efficacy of ASP-siRNA for wild allele:30
Relative difference:50
Wild siRNA details Wild allele (5'->3'): CAGCAGCAGCAGCAGCAGC
Wild siRNA (As strand 3'->5'):GUCGUCGUCGUCGUCGUCG
Percentage efficacy of wild siRNA for wild allele:25
Wild allele (5'->3'): CAGCAGCAGCAGCAGCAGC
ASP-siRNA (As strand 3'->5'):GUCGUCGUAAAAGUCGUCG
Percentage efficacy of Wild sirna for mutant allele:20
Relative difference :5
General information Mismatch incorporated in siRNA/Target:siRNA
Cell-line used: Fibroblast
Experimental technique used: Western blot
Transfection method: RNAiMAX
siRNA expression method: Isis Pharmaceuticals
Post-transfection duration: 48 hours
Concentration used:50nM
Reference:24981774
Delivery method:Transfection
Article title:Allele-selective inhibition of mutant atrophin-1 expression by duplex and single-stranded RNAs.
Authors:Hu J, Liu J, Narayanannair KJ, Lackey JG, Kuchimanchi S, Rajeev KG, Manoharan M, Swayze EE, Lima WF, Prakash TP, Xiang Q, Martinez C, Corey DR
Journal Reference:Biochemistry. 2014 Jul 22;53(28):4510-8. doi: 10.1021/bi500610r. Epub 2014 Jul 11