The protein encoded by this gene is a transmembrane (type I) heparan sulfate proteoglycan that functions as a receptor in intracellular signaling. The encoded protein is found as a homodimer and is a member of the syndecan proteoglycan family. This gene is found on chromosome 20, while a pseudogene has been found on chromosome 22. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SDC4. 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 = SDC4 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 SDC4, 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 |
|---|---|---|---|---|
| chr20:45,098,253–45,098,840 | 249.8 kb | Distal (>10kb) Multiome | 171 | |
| chr20:45,293,338–45,294,048 | 54.7 kb | Distal (>10kb) Multiome | 531 | |
| chr20:45,340,490–45,341,273 | 7.2 kb | Proximal (<10kb) | 421 | |
| chr20:45,341,603–45,342,760 | 6.1 kb | Proximal (<10kb) Multiome | 696 | |
| chr20:45,343,396–45,344,073 | 4.7 kb | Proximal (<10kb) Multiome | 485 | |
| chr20:45,347,673–45,348,799 | 12 bp | At TSS Multiome | 805 | |
| chr20:45,362,715–45,363,769 | 14.8 kb | Distal (>10kb) Multiome | 970 | |
| chr20:45,373,703–45,374,166 | 25.6 kb | Distal (>10kb) Multiome | 546 | |
| chr20:45,376,274–45,377,532 | 28.2 kb | Distal (>10kb) Multiome | 52 | |
| chr20:45,377,951–45,378,822 | 30.0 kb | Distal (>10kb) Multiome | 127 | |
| chr20:45,405,857–45,407,528 | 58.0 kb | Distal (>10kb) Multiome | 692 | |
| chr20:45,415,906–45,416,528 | 67.7 kb | Distal (>10kb) Multiome | 911 | |
| chr20:45,440,774–45,441,531 | 92.7 kb | Distal (>10kb) Multiome | 56 | |
| chr20:45,463,203–45,463,737 | 115.1 kb | Distal (>10kb) Multiome | 34 | |
| chr20:45,469,289–45,470,949 | 121.2 kb | Distal (>10kb) Multiome HiCAR | 360 | |
| chr20:45,509,025–45,509,824 | 161.0 kb | Distal (>10kb) Multiome | 109 | |
| chr20:45,791,633–45,792,259 | 443.5 kb | Distal (>10kb) Multiome HiCAR | 882 |
Genomic view of the SDC4 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.