Computational prediction of RNA structural motifs involved in posttranscriptional regulatory processes.

ABSTRACT: Messenger RNA molecules are tightly regulated, mostly through interactions with proteins and other RNAs, but the mechanisms that confer the specificity of such interactions are poorly understood. It is clear, however, that this specificity is determined by both the nucleotide sequence and secondary structure of the mRNA. Here, we develop RNApromo, an efficient computational tool for identifying structural elements within mRNAs that are involved in specifying posttranscriptional regulations. By analyzing experimental data on mRNA decay rates, we identify common structural elements in fast-decaying and slow-decaying mRNAs and link them with binding preferences of several RNA binding proteins. We also predict structural elements in sets of mRNAs with common subcellular localization in mouse n

SUBMITTER: Rabani M 

PROVIDER: S-EPMC2567462 | biostudies-literature | 2008 Sep

REPOSITORIES: biostudies-literature