If you don't know anything at all about your RNA you can try this. 

http://regrna2.mbc.nctu.edu.tw/index.html

If your RNA instead belongs to an organism that has been already sequenced you can probably find all the information on a current genome browser. Where you downloaded it from? 

Best

Francesco

Hi Ravi,

It will be easier to answer if you could provide more information. Do you mean you just have a DNA sequence and don't know which organism it belongs to? If so, I am sure you would've used the BLAST algorithm to determine the source. My guess is, you know the source (say an X species), but the CDS and intergenic sequences aren't yet delineated, right? Then you should use a gene order browser to compare syntenic regions with its closest species to roughly determine the coding and noncoding regions. Hope this helps.

Ya u can....but if u provide more inf....regarding ur query..anyway

you may try to blast the seq. what u have and also use the below link

http://egob.biomedicine.gu.se/

(Combining curated homology and syntenic context would reveals gene fate in some species only.)

I hope it may help u....all d best..