UTR visualization of CLIP seq data

Question

[kanwarjag]

How I can visualize utr regions as well as promoter regions, exons and introns in one browser?

Answer 1

[Sukhi Singh]

I am not sure what exactly you mean, but thats what a genome browser is implementing by default. Like in UCSC genome bowser, if you look at the guide

Gene prediction tracks: Coding exons are represented by blocks connected by horizontal lines representing introns. The 5' and 3' untranslated regions (UTRs) are displayed as thinner blocks on the leading and trailing ends of the aligning regions. In full display mode, arrowheads on the connecting intron lines indicate the direction of transcription. In situations where no intron is visible (e.g. single-exon genes, extremely zoomed-in displays), the arrowheads are displayed on the exon block itself.

Then whether its CLIP-Seq or ChIP-Seq, it shouldn't matter.