The protein encoded by this gene is a member of the large DEAD-box protein family, that is defined by the presence of the conserved Asp-Glu-Ala-Asp (DEAD) motif, and has ATP-dependent RNA helicase activity. This protein has been reported to display a high level of RNA-independent ATPase activity, and unlike most DEAD-box helicases, the ATPase activity is thought to be stimulated by both RNA and DNA. This protein has multiple conserved domains and is thought to play roles in both the nucleus and cytoplasm. Nuclear roles include transcriptional regulation, mRNP assembly, pre-mRNA splicing, and mRNA export. In the cytoplasm, this protein is thought to be involved in translation, cellular signaling, and viral replication. Misregulation of this gene has been implicated in tumorigenesis. This gene has a paralog located in the nonrecombining region of the Y chromosome. Pseudogenes sharing similarity to both this gene and the DDX3Y paralog are found on chromosome 4 and the X chromosome. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Oct 2014]
Transcription factors with Perturb-seq knockdown data for DDX3X. 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 = DDX3X 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 DDX3X, 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 |
|---|---|---|---|---|
| chrX:41,084,212–41,086,721 | 249.4 kb | Distal (>10kb) Multiome | 1042 | |
| chrX:41,330,471–41,330,683 | 3.5 kb | Proximal (<10kb) | 235 | |
| chrX:41,332,689–41,333,657 | 840 bp | At TSS Multiome | 789 | |
| chrX:41,333,764–41,335,202 | at TSS | At TSS | 851 | |
| chrX:41,442,052–41,442,765 | 108.3 kb | Distal (>10kb) Multiome | 684 | |
| chrX:41,475,165–41,475,763 | 141.2 kb | Distal (>10kb) Multiome | 76 | |
| chrX:41,621,188–41,621,664 | 287.3 kb | Distal (>10kb) Multiome | 172 |
Genomic view of the DDX3X 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.