This gene encodes a member of the sorting nexin family. Members of this family contain a phosphoinositide binding domain, and are involved in intracellular trafficking. The encoded protein does not contain a coiled coil region, like some family members, but does contain a SRC homology domain near its N-terminus. The encoded protein is reported to have a variety of interaction partners, including of adaptor protein 2 , dynamin, tyrosine kinase non-receptor 2, Wiskott-Aldrich syndrome-like, and ARP3 actin-related protein 3. The encoded protein is implicated in several stages of intracellular trafficking, including endocytosis, macropinocytosis, and F-actin nucleation. [provided by RefSeq, Jul 2013]
Transcription factors with Perturb-seq knockdown data for SNX9. 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 = SNX9 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 SNX9, 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 |
|---|---|---|---|---|
| chr6:157,533,250–157,533,761 | 289.7 kb | Distal (>10kb) Multiome | 237 | |
| chr6:157,552,274–157,553,166 | 270.6 kb | Distal (>10kb) Multiome | 219 | |
| chr6:157,708,186–157,708,676 | 114.8 kb | Distal (>10kb) Multiome | 16 | |
| chr6:157,822,586–157,824,197 | 65 bp | At TSS Multiome | 842 | |
| chr6:157,831,261–157,831,934 | 8.0 kb | Proximal (<10kb) | 173 | |
| chr6:157,889,727–157,890,344 | 66.8 kb | Distal (>10kb) Multiome | 81 | |
| chr6:157,981,020–157,982,539 | 158.5 kb | Distal (>10kb) Multiome | 932 |
Genomic view of the SNX9 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.