Characteristics and regulatory elements defining constitutive splicing and different modes of alternative splicing in human and mouse
Characteristics and regulatory elements defining constitutive splicing and different modes of alternative splicing in human and mouse
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DOI：
10.1261/rna.2660805
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发表时间：
2005-12-01
期刊：
影响因子：
4.5
通讯作者：
Gribskov, M
中科院分区：
文献类型：
--
作者：
Zheng, CL;Fu, XD;Gribskov, M
选择性剪接是导致基因组复杂性、疾病和发育的主要因素。以前的研究已经捕捉到了区分选择性剪接和结构性剪接的一些特征。然而，大多数已发表的工作只关注跳过的外显子和/或单一物种。在这里，我们利用MAASE数据库中高度精选的数据(请参阅本期中的相关文章)来分析不同剪接模式的特征。我们的分析证实了先前关于选择性剪接的观察结果，包括选择性剪接位点上较弱的剪接信号，垂直替代外显子周围较高的序列保守性，较短的外显子长度，以及跳过的外显子中更频繁的读框维持。此外，我们的研究揭示了潜在的新的调控原理，潜在的不同的选择性剪接模式，以及一类特定的重复元件(转座子)在选择性外显子的起源/进化中的作用。这些特征为不同的选择性剪接模式提供了不同的调控机制和进化路径。
Alternative splicing is a major contributor to genomic complexity, disease, and development. Previous studies have captured some of the characteristics that distinguish alternative splicing from constitutive splicing. However, most published work only focuses on skipped exons and/or a single species. Here we take advantage of the highly curated data in the MAASE database (see related paper in this issue) to analyze features that characterize different modes of splicing. Our analysis confirms previous observations about alternative splicing, including weaker splicing signals at alternative splice sites, higher sequence conservation surrounding orthologous alternative exons, shorter exon length, and more frequent reading frame maintenance in skipped exons. In addition, our study reveals potentially novel regulatory principles underlying distinct modes of alternative splicing and a role of a specific class of repeat elements (transposons) in the origin/evolution of alternative exons. These features suggest diverse regulatory mechanisms and evolutionary paths for different modes of alternative splicing.