DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp (DEAD), are putative RNA helicases. They 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. Based on their distribution patterns, some members of this DEAD box protein family are believed to be involved in embryogenesis, spermatogenesis, and cellular growth and division. This gene encodes a DEAD box enzyme that may be involved in ribosomal RNA synthesis or processing. This gene and DDX21, also called RH-II/GuA, have similar genomic structures and are in tandem orientation on chromosome 10, suggesting that the two genes arose by gene duplication in evolution. This gene has pseudogenes on chromosomes 2, 3 and 4. Alternative splicing of this gene generates multiple transcript variants, but the full length nature of all the other variants but one has not been defined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for DDX50. 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 = DDX50 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 DDX50, 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 |
|---|---|---|---|---|
| chr10:68,720,659–68,721,908 | 180.1 kb | Distal (>10kb) Multiome | 939 | |
| chr10:68,826,917–68,827,679 | 73.9 kb | Distal (>10kb) Multiome | 577 | |
| chr10:68,900,541–68,901,785 | 117 bp | At TSS Multiome | 1082 | |
| chr10:68,955,769–68,956,761 | 54.9 kb | Distal (>10kb) Multiome | 938 | |
| chr10:68,988,361–68,989,558 | 87.5 kb | Distal (>10kb) Multiome | 896 | |
| chr10:69,123,352–69,125,173 | 222.8 kb | Distal (>10kb) Multiome | 918 | |
| chr10:69,179,817–69,180,725 | 278.8 kb | Distal (>10kb) Multiome | 900 |
Genomic view of the DDX50 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.