Specific SR protein-dependent splicing substrates identified through genomic SELEX

Nucleic Acids Res. 2003 Apr 1;31(7):1955-61. doi: 10.1093/nar/gkg286.

Abstract

The Drosophila pre-mRNA splicing factor B52 (SRp55) is essential for fly development, but splicing of RNAs of specific genes tested previously is normal in B52-null animals, presumably due to partial functional redundancy with other SR proteins. To identify B52-dependent splicing substrates in vivo, we selected genomic sequence fragments whose transcripts bind B52. Almost all of the corresponding genes having a known function encode either transcription factors or components of signal transduction pathways, with the B52- binding fragments located to not only exonic but also intronic regions. Some pre-mRNAs from these genes showed splicing defects in the B52-null mutant. These results indicate that B52 has unique functions in the removal of some introns during development, and plays a critical role in cellular regulatory networks.

Publication types

  • Research Support, U.S. Gov't, P.H.S.

MeSH terms

  • Animals
  • Base Sequence
  • Binding Sites / genetics
  • Cell Line
  • Drosophila / genetics
  • Drosophila Proteins*
  • Electrophoretic Mobility Shift Assay
  • Genome*
  • Nuclear Proteins / genetics
  • Nuclear Proteins / metabolism*
  • Oligoribonucleotides / genetics
  • Oligoribonucleotides / metabolism
  • Open Reading Frames / genetics
  • Phosphoproteins / genetics
  • Phosphoproteins / metabolism*
  • Protein Binding
  • RNA Precursors / genetics
  • RNA Precursors / metabolism
  • RNA Splicing / genetics*
  • RNA Splicing Factors
  • RNA-Binding Proteins / genetics
  • RNA-Binding Proteins / metabolism

Substances

  • Drosophila Proteins
  • Nuclear Proteins
  • Oligoribonucleotides
  • Phosphoproteins
  • RNA Precursors
  • RNA Splicing Factors
  • RNA-Binding Proteins
  • B52 protein, Drosophila