Enables RNA binding activity. Involved in mRNA splice site recognition. Located in cytoplasm; nucleoplasm; and spliceosomal complex. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for KHDC4. 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 = KHDC4 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 KHDC4, 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 |
|---|---|---|---|---|
| chr1:155,688,087–155,689,328 | 245.6 kb | Distal (>10kb) Multiome | 838 | |
| chr1:155,745,339–155,745,870 | 188.8 kb | Distal (>10kb) Multiome | 505 | |
| chr1:155,806,537–155,807,073 | 127.6 kb | Distal (>10kb) Multiome | 15 | |
| chr1:155,856,932–155,857,529 | 77.2 kb | Distal (>10kb) Multiome | 639 | |
| chr1:155,859,095–155,860,745 | 75.0 kb | Distal (>10kb) Multiome | 632 | |
| chr1:155,910,686–155,911,579 | 23.0 kb | Distal (>10kb) Multiome | 691 | |
| chr1:155,934,107–155,934,787 | 71 bp | At TSS Multiome | 872 | |
| chr1:155,976,727–155,977,187 | 42.5 kb | Distal (>10kb) Multiome | 316 | |
| chr1:155,977,296–155,979,264 | 44.3 kb | Distal (>10kb) Multiome | 698 | |
| chr1:156,020,469–156,021,128 | 86.5 kb | Distal (>10kb) Multiome | 558 | |
| chr1:156,052,923–156,055,358 | 120.5 kb | Distal (>10kb) Multiome | 1053 | |
| chr1:156,060,806–156,061,738 | 126.8 kb | Distal (>10kb) Multiome | 318 | |
| chr1:156,063,507–156,064,184 | 129.4 kb | Distal (>10kb) Multiome | 199 | |
| chr1:156,076,488–156,077,355 | 142.6 kb | Distal (>10kb) Multiome | 246 | |
| chr1:156,081,942–156,083,586 | 148.2 kb | Distal (>10kb) Multiome | 670 | |
| chr1:156,105,879–156,107,316 | 172.2 kb | Distal (>10kb) Multiome | 663 | |
| chr1:156,114,184–156,115,669 | 180.3 kb | Distal (>10kb) Multiome | 824 | |
| chr1:156,123,520–156,124,091 | 189.4 kb | Distal (>10kb) Multiome | 679 | |
| chr1:156,129,945–156,130,610 | 196.0 kb | Distal (>10kb) Multiome | 733 | |
| chr1:156,146,058–156,146,760 | 211.9 kb | Distal (>10kb) Multiome | 429 | |
| chr1:156,149,593–156,150,242 | 215.6 kb | Distal (>10kb) Multiome | 194 | |
| chr1:156,160,602–156,161,218 | 226.7 kb | Distal (>10kb) Multiome | 218 | |
| chr1:156,181,487–156,182,119 | 247.4 kb | Distal (>10kb) Multiome | 145 | |
| chr1:156,184,002–156,185,155 | 250.0 kb | Distal (>10kb) Multiome | 216 | |
| chr1:156,193,531–156,194,375 | 259.5 kb | Distal (>10kb) Multiome | 751 | |
| chr1:156,212,611–156,213,686 | 278.7 kb | Distal (>10kb) Multiome | 893 |
Genomic view of the KHDC4 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.