How to predict the effect of 3UTR SNPs on miRNA docking and polyadenylation

Question

[johntikas]

I am particularly interested for rs11515 and rs1137282, in terms of the possible effects for polyadenylation and interaction with miRNAs. I would appreciate any machine learning/bioinformatics approach that is being used widely, despite the fact that I haven't found it already.

[mikhail.shugay]

Have you tried mrsnp? It appears to do exactly what you want, an example query would be

9 21968199 C G
12 25362777 A C
12 25362777 A T
12 25362777 A G