miRNA prediction on a given mRNA
Posted 16 February 2011 - 11:15 AM
I am doing research on the miRNA field mostly in wet lab. Nevertheless, I am starting to do some miRNA target predictions in silico before doing it in vitro. I have a couple of mRNAs that I am interested in and would like to know if they are under miRNA regulation. Does anyone know where I can paste a 3'UTR sequence and find out which miRNAs can anneal and may regulate this given miRNA. I am using zebrafish as a model system.
I hope I was clear enough and thanks by advance if you can help me!
Posted 16 February 2011 - 06:04 PM
or direct link http://cbio.mskcc.or...3/src/jmiranda/
Posted 17 February 2011 - 04:31 PM
Also, Diane Lab isn't bad because it accumulates data from different miRNA target predictor programs online.
Posted 17 February 2011 - 06:35 PM
Posted 30 March 2011 - 10:20 AM
Yes, TargetScan is another nice program which puts a lot of weight on conservation. But there seems not to have a stand-alone program allowing you to run your own prediction.
The perl scripts are at the bottom of the page: http://www.targetsca....cgi?db=vert_50