RNA-binding motifs matching

Question

[kowdelta]

so I have some motifs I want to match with already knew RNA-binding motifs using TOMTOM, and there is an option of reverse complement in the tool.

an example I can match my motif to this know motif of SRSF9

or I can match it also to its reverse complement :

I know this it true for DNA motifs but is it correct for RNA too?

Thanks.

Answer 1

[Martombo]

I think this is done automatically, if you look for TATC you'll find GATA factors.

Answer 2

[Alex Reynolds]

Yes. Take a look at the MEME suite documentation on the definition of the RNA alphabet it uses. You can also specify a MEME database file that contains RNA-alphabetted motif models, using the -xalph option to force use of this alphabet for analysis.