This gene encodes a member of protein family containing a characteristic Asp-Glu-Ala-Asp (DEAD) motif. These proteins are putative RNA helicases, and may be involved in a range of nuclear processes including translational initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. Multiple alternatively spliced transcript variants have been found for this gene. Pseudogenes have been identified on chromosomes 1 and 12. [provided by RefSeq, Feb 2016]
Transcription factors with Perturb-seq knockdown data for DDX55. 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 = DDX55 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 DDX55, 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 |
|---|---|---|---|---|
| chr12:123,363,804–123,365,980 | 237.0 kb | Distal (>10kb) Multiome | 1015 | |
| chr12:123,383,367–123,384,963 | 218.2 kb | Distal (>10kb) Multiome | 836 | |
| chr12:123,388,500–123,389,409 | 213.3 kb | Distal (>10kb) Multiome | 446 | |
| chr12:123,436,072–123,436,895 | 165.5 kb | Distal (>10kb) Multiome | 742 | |
| chr12:123,458,045–123,458,697 | 143.7 kb | Distal (>10kb) Multiome | 925 | |
| chr12:123,533,444–123,534,540 | 68.1 kb | Distal (>10kb) Multiome | 718 | |
| chr12:123,583,890–123,585,003 | 17.6 kb | Distal (>10kb) Multiome | 928 | |
| chr12:123,601,617–123,602,401 | 99 bp | At TSS Multiome | 1076 | |
| chr12:123,633,273–123,633,970 | 31.6 kb | Distal (>10kb) Multiome | 886 | |
| chr12:123,670,899–123,671,414 | 69.0 kb | Distal (>10kb) Multiome | 469 | |
| chr12:123,711,684–123,712,955 | 110.1 kb | Distal (>10kb) Multiome | 771 | |
| chr12:123,719,176–123,720,140 | 117.5 kb | Distal (>10kb) Multiome | 303 | |
| chr12:123,761,832–123,763,058 | 159.9 kb | Distal (>10kb) Multiome | 416 |
Genomic view of the DDX55 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.