I want to predict miRNA targets for some mRNAs. Are there any prediction tools that allow mRNA sequences as input and then provide the targeting miRNAs? I know there are several miRNA target prediction tools out there but I always only find options to put in gene IDs or miRNA IDs and not sequences. I also could provide structural information about the mRNA for target site accessibility and so on but I do not have gene IDs... Is there a specific tool that provides this option? Thanks!
Thank you for your answer that was really helpful!