Figure 5.

Size analysis of coding sequence and UTRs of U2AF⁶⁵- and PTB-associated mRNA populations. (a) Average size of 5' and 3' UTRs and coding sequence (CDS) for mRNAs in the U2AF⁶⁵-associated or PTB-associated populations and their respective control (nonassociated) populations (2). For this analysis, information for the longest curated transcript available in EMBL [40], GenBank [41], and RefSeq [42] databases was retrieved for all entries in each population, when available (4). Statistically significant differences between the associated and the respective control populations are indicated. (b) Analysis of putative U2AF⁶⁵ and PTB binding motifs in selected mRNA populations. The longest curated transcripts for mRNA accessions in the U2AF⁶⁵-associated or PTB-associated populations and their respective control (nonassociated) populations were searched for putative U2AF⁶⁵- and PTB-binding motifs. Graphs present average U2AF⁶⁵ motif density in the U2AF⁶⁵-associated and control populations, and average PTB motif density in the PTB-associated and control populations. The ratio between values for each associated/control pair is shown. (c) Analysis of the distribution of putative U2AF⁶⁵- and PTB-binding motifs in the different transcript regions. Graphs present average U2AF⁶⁵ motif density by transcript region in the U2AF⁶⁵-associated and control populations and average PTB motif density by transcript region in the PTB-associated and control populations. The ratio between values for each associated/control pair is shown. *P << 0.001. n, population size; n.s., not significant; PTB, polypyrimidine tract binding protein; U2AF, U2 small nuclear RNP auxiliary factor; UTR, untranslated region.