Entering edit mode
9.7 years ago
Prasad
★
1.6k
Hi,
I have set of mature miRNA sequences (18-36 bp range) [genome sequence is not available]. For these mature mirna sequences I want to find exact precursor sequences. I aligned mature sequence to genome and took upstream and downstream 50 bp including mature mirna and did the rna folding but I am getting structure for full. my questions are
- How do I predict exact precursor sequence
- To identify miRNA* for existing mature rna. Should I just reverse complement the mature mirna?
Any suggestions are appreciated. Thanks
Prasad, Which species are you looking at? Do you have some microRNA-seq data already?
Thanks for the reply. i am working on plant species with no genome. I want to predict precursor sequence for each of mirna. i will try with mir-Deep2
Do you have small RNA seq data to help you identify the miR genes? Because miR-Deep2 is limited to a few animal species only, miR-Deep-P might be more appropriate.