aspsirna4029 details

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ASPsiRNA information siRNA Id:aspsirna4029
siRNA Name: siRNA-38_17C
Mismatch information Wild siRNA (As strand 3'->5'):CUCAGCUCAGCCUUUCGAG
ASP-siRNA (As strand 3'->5'):CUCAGCUCAGCCUUUCGAG
Mismatch position in siRNA: C:A
Gene Information Gene Name Platelet-derived growth factor beta polypeptide (PDGFB)
Target Sequence (5'->3'):CCGAGCACATTCTGGAGTCGAGTCGGAAAGCTCATC
Wild allele (5'->3'):GAGUCGAGUCGGAAAGCUC
Mutant allele (5'->3'):GAAUCGAGUCGGAAAGCUC
Position of siRNA on target gene: 604-622
Respective Gene/Protein Resources GenBank Accession:NM_031524.1
Cytogenic location:22q13.1
Chromosomal coordinates:22:39,619,684-39,640,956
UniProt ID:P09619
HUGO ID:NA
Reference SNp(RefSNP): NA
Disease/Mutation information Target Mutation: NA
Matation type/variant: NA
Mutation at gene level: NA
Pathogenic status of mutation: NA
Disease:NA
Clinical Resources ClinVar ID:NA
KEGG disease ID:NA
OMIM ID: NA
COSMIC: PDGFB
DECIPHER: PDGFB
GeneTests: PDGFB
ASP siRNA details Mutant allele (5'->3'): GAAUCGAGUCGGAAAGCUC
ASP-siRNA (As strand 3'->5'):CUCAGCUCAGCCUUUCGAG
Percentage efficacy of ASP-siRNA for mutant allele:90
Wild allele (5'->3'): GAGUCGAGUCGGAAAGCUC
ASP-siRNA (As strand 3'->5'):CUCAGCUCAGCCUUUCGAG
Percentage efficacy of ASP-siRNA for wild allele:92
Relative difference:2
Wild siRNA details Wild allele (5'->3'): GAGUCGAGUCGGAAAGCUC
Wild siRNA (As strand 3'->5'):CUCAGCUCAGCCUUUCGAG
Percentage efficacy of wild siRNA for wild allele:100
Wild allele (5'->3'): GAGUCGAGUCGGAAAGCUC
ASP-siRNA (As strand 3'->5'):CUCAGCUCAGCCUUUCGAG
Percentage efficacy of Wild sirna for mutant allele:40
Relative difference :60
General information Mismatch incorporated in siRNA/Target:siRNA
Cell-line used: HEK293
Experimental technique used: RT-PCR, Flourescence microscopy
Transfection method: TriZol reagent
siRNA expression method: Genepharma, Proligo Sigma
Post-transfection duration: 24 hours
Concentration used:13nM
Reference:19815667
Delivery method:Transfection
Article title:Profiling of mismatch discrimination in RNAi enabled rational design of allele-specific siRNAs.
Authors:Huang H, Qiao R, Zhao D, Zhang T, Li Y, Yi F, Lai F, Hong J, Ding X, Yang Z, Zhang L, Du Q, Liang Z.
Journal Reference:Nucleic Acids Res. 2009 Dec;37(22):7560-9. doi: 10.1093/nar/gkp835. Epub .