DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases which are implicated in a number of cellular processes involving RNA binding and alteration of RNA secondary structure. This gene encodes a protein containing RNA helicase-DEAD box protein motifs and a caspase recruitment domain (CARD). It is involved in viral double-stranded (ds) RNA recognition and the regulation of the antiviral innate immune response. Mutations in this gene are associated with Singleton-Merten syndrome 2. [provided by RefSeq, Aug 2020]
Transcription factors with Perturb-seq knockdown data for RIGI. The Binding column indicates whether any binding evidence exists for this TF–gene pair (ChIP-seq or motif footprint peaks). The Mean coef is the average Perturb-seq regression coefficient across active gRNAs (positive = RIGI upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.
| TF | Mean coef | Binding | Outlier | TF→Gene link |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RIGI, linked by TSS proximity or chromatin conformation (Multiome / HiCAR). Each element overlaps at least one TF ChIP-seq binding site — the TFs column shows how many distinct TFs bind that element.
| Accessibility | Element | Dist. to TSS | Link type | TFs |
|---|---|---|---|---|
| chr9:32,344,322–32,345,899 | 181.6 kb | Distal (>10kb) Multiome | 320 | |
| chr9:32,383,941–32,385,359 | 141.7 kb | Distal (>10kb) Multiome | 770 | |
| chr9:32,524,630–32,526,749 | 1.3 kb | Proximal (<10kb) Multiome | 802 | |
| chr9:32,532,129–32,532,740 | 6.0 kb | Proximal (<10kb) | 7 | |
| chr9:32,550,146–32,552,913 | 24.7 kb | Distal (>10kb) Multiome | 1007 | |
| chr9:32,572,342–32,573,474 | 46.8 kb | Distal (>10kb) Multiome | 817 | |
| chr9:32,782,490–32,784,047 | 257.1 kb | Distal (>10kb) Multiome | 305 |
Genomic view of the RIGI locus showing ATAC-seq accessibility and RNA-seq expression across the ESC → DE time course, together with TF binding peaks and element-to-TSS loop connections.