If I have specific chromosome coordinates, how do I find out if this region is Exon or Intron or UTR? eg. chr9:7205401-7206719 is within an Intron.
I have a long list and can't do this manually. Any suggestions?
Also, my analysis was performed using GENCODE annotation for Mouse (mm10). Sometimes, the same chromosome coordinates can map to multiple genomic contexts. In this situation, is there a "standard" as to how can be rank the contexts?