aspsirna3993 details

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ASPsiRNA information siRNA Id:aspsirna3993
siRNA Name: siRNA-35_17U
Mismatch information Wild siRNA (As strand 3'->5'):CGUUUAAGUGGUGCCGUUC
ASP-siRNA (As strand 3'->5'):CGUUUAAGUGGUGCCGUUC
Mismatch position in siRNA: U:U
Gene Information Gene Name Discoidin domain receptor tyrosine kinase 2 (DDR2)
Target Sequence (5'->3'):AAAGCATCTTGCTGGGCAAATTCACCACGGCAAGTGATG
Wild allele (5'->3'):GCAAAUUCACCACGGCAAG
Mutant allele (5'->3'):GCUAAUUCACCACGGCAAG
Position of siRNA on target gene: 2287-2305
Respective Gene/Protein Resources GenBank Accession:NM_031764.3
Cytogenic location:1q23.3
Chromosomal coordinates:1:162,602,227-162,756,408
UniProt ID:Q16832
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: DDR2
DECIPHER: DDR2
GeneTests: DDR2
ASP siRNA details Mutant allele (5'->3'): GCUAAUUCACCACGGCAAG
ASP-siRNA (As strand 3'->5'):CGUUUAAGUGGUGCCGUUC
Percentage efficacy of ASP-siRNA for mutant allele:75
Wild allele (5'->3'): GCAAAUUCACCACGGCAAG
ASP-siRNA (As strand 3'->5'):CGUUUAAGUGGUGCCGUUC
Percentage efficacy of ASP-siRNA for wild allele:92
Relative difference:17
Wild siRNA details Wild allele (5'->3'): GCAAAUUCACCACGGCAAG
Wild siRNA (As strand 3'->5'):CGUUUAAGUGGUGCCGUUC
Percentage efficacy of wild siRNA for wild allele:90
Wild allele (5'->3'): GCAAAUUCACCACGGCAAG
ASP-siRNA (As strand 3'->5'):CGUUUAAGUGGUGCCGUUC
Percentage efficacy of Wild sirna for mutant allele:15
Relative difference :75
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 .