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Effect of 3′UTR structure and size on IRES translation. (A) Predicted secondary structure of the CBV3 3′UTR (42). (B) A fragment encompassing the pBlueScript MCS or its internal deletion variants (indicated as 22, 41, and 63 by arrowheads) were used to replace the native CBV3 3′UTR. The secondary structure of the MCS fragment was derived from sequence analysis with Mfold 3.1 (57). All reporters carry an A50 tail. (C) rLuc expression from reporter RNAs containing the specified 3′UTR.
