Position-dependent alternative splicing activity revealed by global profiling of alternative splicing events regulated by PTB

M Llorian, S Schwartz, TA Clark, D Hollander… - Nature structural & …, 2010 - nature.com
M Llorian, S Schwartz, TA Clark, D Hollander, LY Tan, R Spellman, A Gordon…
Nature structural & molecular biology, 2010nature.com
To gain global insights into the role of the well-known repressive splicing regulator PTB, we
analyzed the consequences of PTB knockdown in HeLa cells using high-density
oligonucleotide splice-sensitive microarrays. The major class of identified PTB-regulated
splicing event was PTB-repressed cassette exons, but there was also a substantial number
of PTB-activated splicing events. PTB-repressed and PTB-activated exons showed a distinct
arrangement of motifs with pyrimidine-rich motif enrichment within and upstream of …
Abstract
To gain global insights into the role of the well-known repressive splicing regulator PTB, we analyzed the consequences of PTB knockdown in HeLa cells using high-density oligonucleotide splice-sensitive microarrays. The major class of identified PTB-regulated splicing event was PTB-repressed cassette exons, but there was also a substantial number of PTB-activated splicing events. PTB-repressed and PTB-activated exons showed a distinct arrangement of motifs with pyrimidine-rich motif enrichment within and upstream of repressed exons but downstream of activated exons. The N-terminal half of PTB was sufficient to activate splicing when recruited downstream of a PTB-activated exon. Moreover, insertion of an upstream pyrimidine tract was sufficient to convert a PTB-activated exon to a PTB-repressed exon. Our results show that PTB, an archetypal splicing repressor, has variable splicing activity that predictably depends upon its binding location with respect to target exons.
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