checking whther there is any miRNA in introns of a specific gene. - (Dec/19/2011 )
How is it possible to check whether any published miRNA is located in introns of a certain gene(eg. TGF ?
go to mirbase website. Download the gff file ( coordinates of each pre-miRNA). Check if they are in intron by overlapping with the intron coordinates. You can have the coordinates of exons (so introns too) in ensembl (biomart). Enjoy