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Conservation of an RNA regulatory map between Drosophila and mammals.
- Source :
-
Genome research [Genome Res] 2011 Feb; Vol. 21 (2), pp. 193-202. Date of Electronic Publication: 2010 Oct 04. - Publication Year :
- 2011
-
Abstract
- Alternative splicing is generally controlled by proteins that bind directly to regulatory sequence elements and either activate or repress splicing of adjacent splice sites in a target pre-mRNA. Here, we have combined RNAi and mRNA-seq to identify exons that are regulated by Pasilla (PS), the Drosophila melanogaster ortholog of mammalian NOVA1 and NOVA2. We identified 405 splicing events in 323 genes that are significantly affected upon depletion of ps, many of which were annotated as being constitutively spliced. The sequence regions upstream and within PS-repressed exons and downstream from PS-activated exons are enriched for YCAY repeats, and these are consistent with the location of these motifs near NOVA-regulated exons in mammals. Thus, the RNA regulatory map of PS and NOVA1/2 is highly conserved between insects and mammals despite the fact that the target gene orthologs regulated by PS and NOVA1/2 are almost entirely nonoverlapping. This observation suggests that the regulatory codes of individual RNA binding proteins may be nearly immutable, yet the regulatory modules controlled by these proteins are highly evolvable.
- Subjects :
- Alternative Splicing
Animals
Antigens, Neoplasm genetics
Cells, Cultured
Computational Biology
Conserved Sequence genetics
Drosophila Proteins genetics
Exons
Gene Expression Profiling
Introns
Molecular Sequence Data
Nerve Tissue Proteins genetics
Neuro-Oncological Ventral Antigen
RNA Interference
RNA Precursors genetics
RNA Precursors metabolism
RNA, Messenger genetics
RNA-Binding Proteins genetics
Ribonucleoproteins genetics
Drosophila genetics
Mammals genetics
RNA, Messenger metabolism
Subjects
Details
- Language :
- English
- ISSN :
- 1549-5469
- Volume :
- 21
- Issue :
- 2
- Database :
- MEDLINE
- Journal :
- Genome research
- Publication Type :
- Academic Journal
- Accession number :
- 20921232
- Full Text :
- https://doi.org/10.1101/gr.108662.110