HEXIM1-binding elements on mRNAs identified through transcriptomic SELEX and computational screening

► cad mRNA was identified as a HEXIM1-binding RNA by transcriptomic SELEX. ► The association of cad mRNA and HEXIM1 in HeLa cells was confirmed. ► cad mRNA bound to HEXIM1 through its bulged stem structure located in exon 11. ► A computational search revealed other RNAs with similar stem structures. ► Among them, brd4 and tcf3 mRNAs were shown to bind to HEXIM1 in HeLa cells.