Extended Data Fig. 2: lnc13 gene body does not contain regulatory elements.
From: The long noncoding RNA lnc13 restrains inflammatory responses to maintain oral tolerance to gluten
(a) Schematic of lnc13 knockout. Scissors represent CRISPR guide RNA cut sites. 3 gRNA target each cut site (Supplementary Table 2). Around 2.4kb of mouse lnc13 was cut out without disrupting Il18rap. (b) Cap analysis of gene expression (CAGE-seq) signal (FANTOM5) across the lnc13 locus, visualized in the UCSC genome browser. Signal in red (positive strand) aligns with lnc13 transcription. (c) ENCODE cis-regulatory element (cCRE) annotations at the lnc13 genomic locus. No predicted enhancer activity observed within the lnc13 gene body. (d) Chromatin marks in relevant mouse tissues (kidney, small intestine, spleen, thymus) show absence of canonical enhancer (H3K4me1, H3K27Ac) signatures within the lnc13 gene body, marked in blue (ENCODE database). For small intestines and thymus H3K27Ac and H3K4me1, gray boxes mark statistically significant called peaks. These data confirm that the lnc13 gene body does not contain an active regulatory element or overlapping enhancer.
