IRFinder: assessing the impact of intron retention on mammalian gene expression.
IRFinder: assessing the impact of intron retention on mammalian gene expression.
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DOI：
10.1186/s13059-017-1184-4
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发表时间：
2017-03-15
期刊：
影响因子：
12.3
通讯作者：
Ritchie W
中科院分区：
文献类型：
--
作者：
Middleton R;Gao D;Thomas A;Singh B;Au A;Wong JJ;Bomane A;Cosson B;Eyras E;Rasko JE;Ritchie W
当内含子被转录成前mRNA并保留在最终mRNA中时，发生内含子保留（IR）。我们已经开发了一个程序和数据库，称为IRRENT，以准确地检测IR从mRNA测序数据。对2573个样本的分析表明，IR发生在所分析的所有组织中，影响超过80%的所有编码基因，并与细胞分化和细胞周期相关。经常保留的内含子富含特定的RNA结合蛋白位点，并且经常在同一基因中保留成簇。IR与较低的蛋白质水平和内含子保留转录，逃避无义介导的衰变不积极翻译。本文的在线版本（doi：10.1186/s13059-017-1184-4）包含补充材料，可供授权用户使用。
Intron retention (IR) occurs when an intron is transcribed into pre-mRNA and remains in the final mRNA. We have developed a program and database called IRFinder to accurately detect IR from mRNA sequencing data. Analysis of 2573 samples showed that IR occurs in all tissues analyzed, affects over 80% of all coding genes and is associated with cell differentiation and the cell cycle. Frequently retained introns are enriched for specific RNA binding protein sites and are often retained in clusters in the same gene. IR is associated with lower protein levels and intron-retaining transcripts that escape nonsense-mediated decay are not actively translated. The online version of this article (doi:10.1186/s13059-017-1184-4) contains supplementary material, which is available to authorized users.