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There are some tools for predicting the binding: TargetScan (based on seed match [primary], extra pairing, sequence context 1 — nucleotide composition around the site etc [secondary]) miRanda (based on hybridization stability and seed match[primary] and sequence context [secondary]) PicTar (adds a layer of evolutionary conservation criteria) 1 Context ...


I would thoroughly check the literature on the UTR you are interested in, a lot of this has already been done for many genomic regions since nextgen seq began. You will want to first off use computational prediction algorithms to help guide you in getting a good Candidate list of miRNAs The interaction between a miRNA and its target mRNAs is usually ...

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