Question: RNA Splicing databases
gravatar for ga87mit
8 months ago by
ga87mit20 wrote:

Hello, I'm working on predicting RNA splicing. What are good databases that contain RNA sequences and their splicing sites?

ADD COMMENTlink modified 8 months ago by Geparada1.4k • written 8 months ago by ga87mit20
gravatar for Geparada
8 months ago by
Geparada1.4k wrote:

In general you can find the splice sites from gene models such as GENCODE (, refseq or UCSC genes. I particularly recommend you to use GENCODE since is constantly getting improved. You can extract splicing sites from GTF, GFF or bed12 files. If you use UCSC Table Browser you can access to a different "gene and genes predictions" files and choose the format that is easier to you to understand. Now, if you are interested in alternative splicing I would recommend VastDB (

I hope this helps, Cheers

ADD COMMENTlink written 8 months ago by Geparada1.4k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1880 users visited in the last hour