SEQanswers

Go Back   SEQanswers > Bioinformatics > Bioinformatics



Similar Threads
Thread Thread Starter Forum Replies Last Post
predict transcription factor binding sites in dna sequence Amative Bioinformatics 2 01-05-2013 05:49 PM
PubMed: An effective approach for identification of in vivo protein-DNA binding sites Newsbot! Literature Watch 0 02-11-2010 02:10 AM

Reply
 
Thread Tools
Old 01-19-2016, 06:52 PM   #1
HSV-1
Member
 
Location: asia

Join Date: Jul 2012
Posts: 38
Red face How to Scan Degenerate DNA motifs (TF binding sites)

Hi all,
I am interested in the genome-wide DNA motifs for transcription factors.
I am wondering if there are softwares I can use to scan degenerate DNA motifs.
For example I want to search YTATAATRnnnWW in mouse genome in one shot. The problem is that Y stands for pyrimidine, R for purines and n for anyone of A,C,G,T and W for A or T. So I can't simply treat the sequences.

It would be great if someone has this kind of software.

Thanks.

Last edited by HSV-1; 01-19-2016 at 09:47 PM.
HSV-1 is offline   Reply With Quote
Reply

Tags
degenerate, dna motif, software

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off




All times are GMT -8. The time now is 01:37 AM.


Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2019, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO