Identification of motifs that function in the splicing of non-canonical introns

The enrichment of specific intronic splicing enhancers upstream of weak PY tracts suggests a novel mechanism for intron recognition that compensates for a weakened canonical pre-mRNA splicing motif

G-rich and C-rich motifs function combinatorially in LCAT intron 4 splicing

LCAT intron 4 with the mutations shown in blue above the WT sequence. BPS, branchpoint. Splicing of the LCAT intron 4 mini-genes (WT, MUT1, MUT3, MUT6, MUT 24 and MUT 25) in HeLa cells. Analysis was performed as in Figure 4. Graphical representation of the percent pre-mRNA for each LCAT mini-gene. Error bars represent standard deviation of replicate experiments.<p><b>Copyright information:</b></p><p>Taken from "Identification of motifs that function in the splicing of non-canonical introns"</p><p>http://genomebiology.com/2008/9/6/R97</p><p>Genome Biology 2008;9(6):R97-R97.</p><p>Published online 12 Jun 2008</p><p>PMCID:PMC2481429.</p><p></p

Introns containing weak PY tracts are enriched in specific motifs upstream of the PY tract

Shown are representative motifs derived from n-mers enriched in the region upstream of weak PY tracts (see Materials and methods for details of motif construction). The complete list of motifs is available in Additional data files 4 and 5. The average Z-score for enrichment of all of the n-mers that compose the motif is shown to the right. Motifs over-represented upstream of weak PY tracts for GC-rich human introns. Motifs over-represented upstream of weak PY tracts for AT-rich human introns.<p><b>Copyright information:</b></p><p>Taken from "Identification of motifs that function in the splicing of non-canonical introns"</p><p>http://genomebiology.com/2008/9/6/R97</p><p>Genome Biology 2008;9(6):R97-R97.</p><p>Published online 12 Jun 2008</p><p>PMCID:PMC2481429.</p><p></p

Binding of U2AF65 to human PY tracts validates the U2AF65 SELEX scoring system

Gel shift of human U2AF65 with human PY tract RNA oligonucleotides. RNA sequences used for binding studies. The gene and intron (IVS) of origin are indicated. The Kvalues are the average of triplicate experiments. Kvalues marked with an asterisk are estimated since the levels of protein required to reach saturation exceed the capacity of the experiment. Linear regression of the observed U2AF65 affinities versus the predicted Sscore.<p><b>Copyright information:</b></p><p>Taken from "Identification of motifs that function in the splicing of non-canonical introns"</p><p>http://genomebiology.com/2008/9/6/R97</p><p>Genome Biology 2008;9(6):R97-R97.</p><p>Published online 12 Jun 2008</p><p>PMCID:PMC2481429.</p><p></p