MicroRNAs are endogenous ~23nt RNAs which regulate mRNA targets mainly through perfect pairing with their seed region (positions 2-7). Several instances of bulge UTR sequence can also be recognized by miRNA as their target. But such non-Watson-Crick base pairings are incompletely understood. We found a group of miRNAs which had very few conservative targets while potentially having a subclass of bulge message RNA targets. Compared with the canonical target, these bulge targets had a weaker negative correlation with the miRNA expression, and either were downregulated in the miRNA overexpression experiment or upregulated in the miRNA knock-down experiment.
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