This gene encodes a member of the Asp-Glu-Ala-Asp (DEAD) box protein family. Members of this protein family are putative RNA helicases, and are implicated in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Members of this family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. Two transcript variants encoding the same protein have been identified for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for DDX42. 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 = DDX42 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 DDX42, 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 |
|---|---|---|---|---|
| chr17:63,476,359–63,478,095 | 296.6 kb | Distal (>10kb) Multiome | 520 | |
| chr17:63,478,783–63,479,370 | 294.8 kb | Distal (>10kb) Multiome | 419 | |
| chr17:63,522,589–63,523,803 | 250.7 kb | Distal (>10kb) Multiome | 705 | |
| chr17:63,549,660–63,551,443 | 223.5 kb | Distal (>10kb) Multiome | 1037 | |
| chr17:63,600,715–63,601,423 | 173.0 kb | Distal (>10kb) Multiome | 1122 | |
| chr17:63,621,512–63,623,359 | 151.8 kb | Distal (>10kb) Multiome | 956 | |
| chr17:63,698,705–63,701,428 | 73.7 kb | Distal (>10kb) Multiome | 663 | |
| chr17:63,741,119–63,742,935 | 32.0 kb | Distal (>10kb) Multiome | 1057 | |
| chr17:63,773,179–63,774,727 | 96 bp | At TSS Multiome | 1169 | |
| chr17:63,775,530–63,775,783 | 1.7 kb | Proximal (<10kb) | 114 | |
| chr17:63,826,794–63,828,024 | 53.5 kb | Distal (>10kb) Multiome | 1008 | |
| chr17:63,841,547–63,843,442 | 69.1 kb | Distal (>10kb) Multiome | 1203 | |
| chr17:63,848,836–63,849,566 | 75.3 kb | Distal (>10kb) Multiome | 658 | |
| chr17:63,960,119–63,962,604 | 188.0 kb | Distal (>10kb) Multiome | 445 | |
| chr17:63,998,051–63,998,826 | 224.5 kb | Distal (>10kb) Multiome | 408 |
Genomic view of the DDX42 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.