Part:BBa_K5082005

RNA is a common type of biological molecule. In cells, RNAs exist in many forms including messenger RNA (mRNA), ribosomal RNA (rRNA), translational RNA (tRNA), etc. Although RNA molecules are single-stranded, unlike DNA, they still form secondary structures through intramolecular complementary base-pairing to minimize free-energy (−ΔG/nt) and become more thermodynamically stable. mRNA secondary structures are dependent on factors including base sequence, protein binding, and guanine-cytosine content. mRNA secondary structures with −ΔG/nt≥0.3 are defined to be highly structured while those with −ΔG/nt ≤0.2 are defined to be poorly structured [1]. mRNA secondary structures are often found in non-coding regions, especially in the 3’UTR [2]. Highly structured 3’UTR are abbreviated as HSU while poorly structured 3’ UTR are abbreviated as PSU. Although HSU regions are non-coding, they serve vital roles in the regulation of gene expression [1]. Previously, the EIF3B gene has been reported to contain an HSU structure [3]. Therefore, this sequence can be used to regulate gene expression once fused downstream to a gene. The secondary structure of an RNA sequence can be predicted by computer software such as mFold or ViennaRNA [4]. The predicted secondary structure for EIF3B-HSU is shown in Figure 1.