The protein encoded by this gene is a member of the SMAD family, which transduces signals from TGF-beta family members. The encoded protein is activated by bone morphogenetic proteins and interacts with SMAD4. Two transcript variants encoding different isoforms have been found for this gene.[provided by RefSeq, Jan 2010]
Transcription factors with Perturb-seq knockdown data for SMAD9. 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 = SMAD9 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 SMAD9, 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 |
|---|---|---|---|---|
| chr13:36,673,749–36,675,136 | 246.9 kb | Distal (>10kb) Multiome | 286 | |
| chr13:36,761,910–36,762,570 | 158.7 kb | Distal (>10kb) Multiome | 247 | |
| chr13:36,818,153–36,820,403 | 101.7 kb | Distal (>10kb) Multiome | 690 | |
| chr13:36,919,257–36,920,884 | 751 bp | At TSS Multiome | 481 | |
| chr13:36,998,372–37,001,433 | 78.4 kb | Distal (>10kb) Multiome | 1090 | |
| chr13:37,058,947–37,060,264 | 138.8 kb | Distal (>10kb) Multiome | 801 |
Genomic view of the SMAD9 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.