Fig. 3: Identification of targets and binding sites of Arpp21 in thymocytes. | Nature Communications

Fig. 3: Identification of targets and binding sites of Arpp21 in thymocytes.

From: The thymocyte-specific RNA-binding protein Arpp21 provides TCR repertoire diversity by binding to the 3’-UTR and promoting Rag1 mRNA expression

Fig. 3

a Description of the Arpp21/miR-128-2 gene locus, indicating the Arpp21 gene targeting strategy. b Representative immunoblot analysis of Arpp21 and Arpp21short proteins in brain and thymus extracts of WT and Arpp21–/– mice. The experiment was repeated twice. c Representative autoradiography of crosslinked and 32P-labeled RNA-Arpp21 immunoprecipitation complexes from thymocyte lysates of WT and Arpp21–/– mice (n = 4 each). d Association of Arpp21 peaks on RNA transcript according to gene region. e Volcano plot of DEGs identified in mRNA-sequencing of DN3 thymocytes showing the −log10 (P value) plotted against the log2 (fold-change). The Arpp21-target mRNAs identified by iCLIP are shown in red. f Integrated genome view displaying Arpp21 iCLIP reads in the 3′-UTRs of Phf6, Lin7c, Tgfbr1, Rc3h1, Rc3h2, and Rag1 showing merged data from four biological replicates. g Heat map showing differentially expressed Arpp21-target genes identified in mRNA-sequencing of DN3 thymocytes (padj < 0.1) in the intersection with iCLIP data in DN2 and DN3 thymocytes from WT (gray) and Arpp21–/– (blue) mice. Values represent the z-score. Source data for (b) are provided as a Source Data file.

Back to article page