ArticlePLoS computational biology2006
Unusual intron conservation near tissue-regulated exons found by splicing microarrays.
Article in PLoS computational biology, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 123 papers.
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Who cites it
123 citing papers in PubMed, 197 citations in OpenAlex.
- Competition for the conserved branch point sequence influences physiological outcomes in pre-mRNA splicing.eLife · 2026Article
- Restriction of an intron size en route to endothermy.Nucleic acids research · 2021Article
- Using antisense oligonucleotides for the physiological modulation of the alternative splicing of NF1 exon 23a during PC12 neuronal differentiation.Scientific reports · 2021Article
- Global regulatory features of alternative splicing across tissues and within the nervous system ofGenome research · 2020Article
- Genome-wide analysis reveals the association between alternative splicing and DNA methylation across human solid tumors.BMC medical genomics · 2020Article
- Article
- Mapping transcriptome-wide protein-RNA interactions to elucidate RNA regulatory programs.Quantitative biology (Beijing, China) · 2018Article
- An Ultraconserved Element (UCE) controls homeostatic splicing of ARGLU1 mRNA.Nucleic acids research · 2017Article
- NMD Classifier: A reliable and systematic classification tool for nonsense-mediated decay events.PloS one · 2017Article
- MAGI Proteins Regulate the Trafficking and Signaling of Corticotropin-Releasing Factor Receptor 1 via a Compensatory Mechanism.Journal of molecular signaling · 2016Article
- Does conservation account for splicing patterns?BMC genomics · 2016Article
- Quaking promotes monocyte differentiation into pro-atherogenic macrophages by controlling pre-mRNA splicing and gene expression.Nature communications · 2016Article
- Selection preserves Ubiquitin Specific Protease 4 alternative exon skipping in therian mammals.Scientific reports · 2016Article
- Article
- Analyzing alternative splicing data of splice junction arrays from Parkinson patients' leukocytes before and after deep brain stimulation as compared with control donors.Genomics data · 2015Article
- Systematic discovery of regulated and conserved alternative exons in the mammalian brain reveals NMD modulating chromatin regulators.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Whole transcriptome RNA sequencing data from blood leukocytes derived from Parkinson's disease patients prior to and following deep brain stimulation treatment.Genomics data · 2015Article
- Rbfox proteins regulate tissue-specific alternative splicing of Mef2D required for muscle differentiation.Journal of cell science · 2015Article
- Alternative splicing: An important mechanism in stem cell biology.World journal of stem cells · 2015Review
- Article
63 more citing papers are in PubMed but not listed here.
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Authors and funding
11 authors at 1 institution in 1 country.
Funding
Abstract
Alternative splicing contributes to both gene regulation and protein diversity. To discover broad relationships between regulation of alternative splicing and sequence conservation, we applied a systems approach, using oligonucleotide microarrays designed to capture splicing information across the mouse genome. In a set of 22 adult tissues, we observe differential expression of RNA containing at least two alternative splice junctions for about 40% of the 6,216 alternative events we could detect. Statistical comparisons identify 171 cassette exons whose inclusion or skipping is different in brain relative to other tissues and another 28 exons whose splicing is different in muscle. A subset of these exons is associated with unusual blocks of intron sequence whose conservation in vertebrates rivals that of protein-coding exons. By focusing on sets of exons with similar regulatory patterns, we have identified new sequence motifs implicated in brain and muscle splicing regulation. Of note is a motif that is strikingly similar to the branchpoint consensus but is located downstream of the 5' splice site of exons included in muscle. Analysis of three paralogous membrane-associated guanylate kinase genes reveals that each contains a paralogous tissue-regulated exon with a similar tissue inclusion pattern. While the intron sequences flanking these exons remain highly conserved among mammalian orthologs, the paralogous flanking intron sequences have diverged considerably, suggesting unusually complex evolution of the regulation of alternative splicing in multigene families.
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