This gene encodes a member of the transmembrane 9 superfamily. The encoded 76 kDa protein localizes to early endosomes in human cells. The encoded protein possesses a conserved and highly hydrophobic C-terminal domain which contains nine transmembrane domains. The protein may play a role in small molecule transport or act as an ion channel. A pseudogene associated with this gene is located on the X chromosome. [provided by RefSeq, Oct 2012]
Transcription factors with Perturb-seq knockdown data for TM9SF2. 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 = TM9SF2 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 TM9SF2, 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 |
|---|---|---|---|---|
| chr13:99,204,975–99,205,472 | 296.2 kb | Distal (>10kb) Multiome | 88 | |
| chr13:99,307,801–99,308,401 | 193.4 kb | Distal (>10kb) Multiome | 300 | |
| chr13:99,498,126–99,499,495 | 2.8 kb | Proximal (<10kb) Multiome | 771 | |
| chr13:99,500,804–99,502,197 | 54 bp | At TSS Multiome | 847 | |
| chr13:99,605,931–99,607,157 | 105.2 kb | Distal (>10kb) Multiome | 845 | |
| chr13:99,657,854–99,658,963 | 157.0 kb | Distal (>10kb) Multiome | 252 | |
| chr13:99,686,744–99,688,098 | 185.7 kb | Distal (>10kb) Multiome | 332 |
Genomic view of the TM9SF2 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.