mmu-miR-124a targets Lamc1 in the Chi et al. CLIP dataset. (A) A read cluster in Lamc1 3' UTR (position 2418-2449) indicates a candidate AGO-Lamc1-miRNA terney complex (shown in the red sequence within the green rectangle). Above that, a pile of miRNA seed sequences are provided according to the TargetScan. The seed of miR-124 is highlighted in a red box. All the reads of this cluster are aligned underneath the 3' UTR sequence of Lamc1. Red letters in reads are mismatches. (B) Detailed positions and TargetScan context scores of MTIs. According to TargetScan, "seed match" 1 indicates 7mer-A1, which implies perfect match in position 2-7 of the mature miRNA and the nucleotide at position 1 is A in the mRNA target site (defined by TargetScan). Others TargetScan score such as local AU, position, TA, SPS, context+ score, and score percentile are are also defined by TargetScan6.2.
Chou et al. BMC Genomics 2013 14(Suppl 1):S2 doi:10.1186/1471-2164-14-S1-S2