Involved in several processes, including positive regulation of protein localization; regulation of intracellular pH; and vacuolar proton-transporting V-type ATPase complex assembly. Located in Golgi apparatus and early endosome. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for TM9SF4. 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 = TM9SF4 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 TM9SF4, 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 |
|---|---|---|---|---|
| chr20:31,822,496–31,823,111 | 286.8 kb | Distal (>10kb) Multiome | 479 | |
| chr20:31,860,463–31,862,362 | 247.9 kb | Distal (>10kb) Multiome | 627 | |
| chr20:31,870,005–31,870,863 | 239.3 kb | Distal (>10kb) Multiome | 460 | |
| chr20:31,879,388–31,880,438 | 229.8 kb | Distal (>10kb) Multiome | 900 | |
| chr20:31,951,523–31,952,606 | 157.7 kb | Distal (>10kb) Multiome | 879 | |
| chr20:31,967,880–31,968,893 | 141.3 kb | Distal (>10kb) Multiome | 1059 | |
| chr20:31,972,125–31,972,938 | 137.2 kb | Distal (>10kb) Multiome | 252 | |
| chr20:32,017,795–32,019,711 | 91.4 kb | Distal (>10kb) Multiome | 611 | |
| chr20:32,031,048–32,031,781 | 78.2 kb | Distal (>10kb) Multiome | 627 | |
| chr20:32,109,321–32,110,237 | 19 bp | At TSS Multiome | 1073 | |
| chr20:32,189,679–32,190,832 | 80.6 kb | Distal (>10kb) Multiome | 290 | |
| chr20:32,207,261–32,208,118 | 98.1 kb | Distal (>10kb) Multiome | 903 | |
| chr20:32,277,439–32,278,095 | 167.9 kb | Distal (>10kb) Multiome | 804 | |
| chr20:32,357,509–32,359,534 | 249.6 kb | Distal (>10kb) Multiome | 1138 |
Genomic view of the TM9SF4 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.