The sequences and secondary structures of the four novel rat specific pre-miRNAs.

<p>3a. rno-mir-3598. 3b. rno-mir-3599. 3c. rno-mir-3600. 3d. rno-mir-3601. The sequences of 4 novel rat specific pre-miRNAs are depicted above their dot-bracket notation secondary structures as determined by RNAfold <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0034394#pone.0034394-Gruber1" target="_blank">[62]</a>, <a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0034394#pone.0034394-Hofacker1" target="_blank">[63]</a> using MFE. RNAfold is a widely used webserver to predict RNA secondary structure. Below the dot-bracket notation secondary structures of these rat specific pre-miRNA, each of the small RNA sequences that matched those pre-miRNAs hairpin are listed, with the number of reads representing each sequence at its right side. The mature and the mature* sequences are marked in red and green, respectively. The MFEs of those rat specific miRNAs predicted by RNAfold are above their pre-miRNA sequences. For rno-miR-3598, the inferred mature* sequence is shown in green in the secondary structure.