Table - link
||Mouse Mus musculus
||Hao S, Baltimore D. RNA splicing regulates the temporal order of TNF-induced gene expression. Proc Natl Acad Sci U S A. 2013 Jul 16 110(29):11934-9. doi: 10.1073/pnas.1309990110. Supporting Information p.10 table S1PubMed ID23812748
||Abstract: "When cells are induced to express inflammatory genes by treatment with TNF [Tumor necrosis factor], the mRNAs for the induced genes appear in three distinct waves, defining gene groups I, II, and III, or early, intermediate, and late genes. To examine the basis for these different kinetic classes, [investigators] have developed a PCR-based procedure to distinguish pre-mRNAs from mRNAs."
||P.11934 right column 2nd paragraph: "Response to TNF [Tumor necrosis factor]: Group I Genes: [Investigators] used this methodology to examine the induction of inflammatory genes in mouse fibroblasts and primary macrophages following addition of TNF. [They] chose five to seven highly inducible genes in each of the early (group I), intermediate (group II), and late (group III) gene families (ref 9). The protein products of these genes have different biological functions, subcellular expression patterns, and basal mRNA expression levels (Table S1). Many studies have shown that RNA polymerase II (Pol II) initiates transcription frequently and widely, often generating abortive fragments that end 20–50 bases downstream of the start site (refs 6, 15–17). To avoid amplifying these short transcripts, [they] have examined only exon–intron junctions at least 150 bases downstream of the transcription start sites and often much further away. [They] were able to detect the unspliced transcripts of all tested genes before TNF addition. The PCR signals from exon–intron junctions are much higher than those from nontranscribed regions (e.g., a promoter Fig. 1C), indicating that the intron-containing RNAs detected here are not randomly initiated RNA fragments." See note beneath table