This gene encodes a member of the sorting nexin family. Members of this family contain a phox (PX) domain, which is a phosphoinositide binding domain, and are involved in intracellular trafficking. This protein does not contain a coiled coil region, like some family members. The specific function of this protein has not been determined. Multiple transcript variants encoding distinct isoforms have been identified for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for SNX21. 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 = SNX21 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 SNX21, 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 |
|---|---|---|---|---|
| chr20:45,764,655–45,765,666 | 68.7 kb | Distal (>10kb) Multiome | 192 | |
| chr20:45,770,709–45,771,657 | 62.6 kb | Distal (>10kb) Multiome | 436 | |
| chr20:45,791,633–45,792,259 | 41.9 kb | Distal (>10kb) Multiome | 882 | |
| chr20:45,812,087–45,813,052 | 21.3 kb | Distal (>10kb) Multiome | 695 | |
| chr20:45,824,126–45,824,531 | 9.3 kb | Proximal (<10kb) | 340 | |
| chr20:45,833,493–45,834,622 | 151 bp | At TSS Multiome | 833 | |
| chr20:45,856,871–45,858,137 | 23.7 kb | Distal (>10kb) Multiome | 884 | |
| chr20:45,880,796–45,881,524 | 47.4 kb | Distal (>10kb) Multiome | 738 | |
| chr20:45,890,127–45,891,800 | 57.6 kb | Distal (>10kb) Multiome | 1095 | |
| chr20:45,910,538–45,912,397 | 78.5 kb | Distal (>10kb) Multiome | 713 | |
| chr20:45,933,591–45,935,780 | 101.3 kb | Distal (>10kb) Multiome | 1195 | |
| chr20:45,971,553–45,972,790 | 138.4 kb | Distal (>10kb) Multiome | 1206 | |
| chr20:46,004,647–46,005,315 | 171.2 kb | Distal (>10kb) Multiome | 207 | |
| chr20:46,011,604–46,012,166 | 178.1 kb | Distal (>10kb) Multiome | 239 | |
| chr20:46,013,565–46,014,586 | 180.3 kb | Distal (>10kb) Multiome | 735 | |
| chr20:46,021,209–46,023,166 | 188.2 kb | Distal (>10kb) Multiome | 679 | |
| chr20:46,031,750–46,032,261 | 198.2 kb | Distal (>10kb) Multiome | 227 | |
| chr20:46,058,408–46,058,983 | 225.0 kb | Distal (>10kb) Multiome | 123 | |
| chr20:46,089,092–46,090,355 | 256.1 kb | Distal (>10kb) Multiome | 1047 | |
| chr20:46,091,736–46,092,300 | 258.4 kb | Distal (>10kb) Multiome | 38 | |
| chr20:46,117,897–46,118,755 | 284.5 kb | Distal (>10kb) Multiome | 376 |
Genomic view of the SNX21 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.