This gene encodes a member of the transmembrane 4 superfamily, also known as the tetraspanin family. Tetraspanins are cell surface glycoproteins with four transmembrane domains that form multimeric complexes with other cell surface proteins. The encoded protein functions in many cellular processes including differentiation, adhesion, and signal transduction, and expression of this gene plays a critical role in the suppression of cancer cell motility and metastasis. [provided by RefSeq, Jan 2011]
Transcription factors with Perturb-seq knockdown data for CD9. 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 = CD9 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 CD9, 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 |
|---|---|---|---|---|
| chr12:4,270,854–4,273,281 | 1928.2 kb | Distal (>10kb) Multiome HiCAR | 648 | |
| chr12:4,273,341–4,274,316 | 1926.6 kb | Distal (>10kb) Multiome HiCAR | 459 | |
| chr12:4,276,737–4,277,243 | 1923.3 kb | Distal (>10kb) Multiome HiCAR | 453 | |
| chr12:5,988,664–5,989,152 | 211.5 kb | Distal (>10kb) Multiome | 322 | |
| chr12:6,056,451–6,057,152 | 143.6 kb | Distal (>10kb) Multiome | 147 | |
| chr12:6,124,068–6,125,228 | 75.6 kb | Distal (>10kb) Multiome | 240 | |
| chr12:6,193,893–6,194,222 | 6.1 kb | Proximal (<10kb) | 131 | |
| chr12:6,195,703–6,195,999 | 4.3 kb | Proximal (<10kb) | 444 | |
| chr12:6,199,391–6,201,130 | 82 bp | At TSS Multiome | 481 | |
| chr12:6,205,142–6,205,554 | 4.8 kb | Proximal (<10kb) | 119 | |
| chr12:6,214,773–6,215,509 | 14.9 kb | Distal (>10kb) Multiome | 158 | |
| chr12:6,278,466–6,279,375 | 78.5 kb | Distal (>10kb) Multiome HiCAR | 655 | |
| chr12:6,310,091–6,311,512 | 110.3 kb | Distal (>10kb) Multiome | 645 | |
| chr12:6,322,926–6,323,961 | 123.1 kb | Distal (>10kb) Multiome | 536 | |
| chr12:6,329,238–6,330,028 | 129.2 kb | Distal (>10kb) Multiome | 135 | |
| chr12:6,335,766–6,337,493 | 136.3 kb | Distal (>10kb) Multiome | 962 | |
| chr12:6,341,619–6,342,234 | 141.9 kb | Distal (>10kb) Multiome | 657 | |
| chr12:6,363,292–6,364,138 | 163.2 kb | Distal (>10kb) Multiome | 718 | |
| chr12:6,370,899–6,371,535 | 170.9 kb | Distal (>10kb) Multiome | 572 | |
| chr12:6,375,204–6,377,302 | 175.1 kb | Distal (>10kb) Multiome | 601 | |
| chr12:6,383,790–6,384,442 | 183.7 kb | Distal (>10kb) Multiome | 812 | |
| chr12:6,451,305–6,451,838 | 251.1 kb | Distal (>10kb) Multiome | 535 | |
| chr12:6,469,922–6,471,399 | 270.5 kb | Distal (>10kb) Multiome | 930 | |
| chr12:6,492,998–6,494,331 | 293.0 kb | Distal (>10kb) Multiome | 936 |
Genomic view of the CD9 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.