This gene encodes a member of the phosphatidic acid preferring-phospholipase A1 family. The encoded protein is localized to endoplasmic reticulum exit sites and plays a critical role in ER-Golgi transport as part of the multimeric coat protein II complex. An orthologous gene in frogs is required for normal neural crest cell development, suggesting that this gene may play a role in Waardenburg syndrome neural crest defects. Alternatively spliced transcript variants have been observed for this gene. [provided by RefSeq, Feb 2011]
Transcription factors with Perturb-seq knockdown data for SEC23IP. 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 = SEC23IP 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 SEC23IP, 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 |
|---|---|---|---|---|
| chr10:119,596,043–119,597,595 | 295.7 kb | Distal (>10kb) Multiome | 893 | |
| chr10:119,650,691–119,652,293 | 241.4 kb | Distal (>10kb) Multiome | 828 | |
| chr10:119,660,009–119,660,666 | 232.3 kb | Distal (>10kb) Multiome | 146 | |
| chr10:119,686,526–119,688,685 | 204.5 kb | Distal (>10kb) Multiome | 790 | |
| chr10:119,725,081–119,726,842 | 166.7 kb | Distal (>10kb) Multiome | 818 | |
| chr10:119,817,887–119,819,190 | 74.2 kb | Distal (>10kb) Multiome | 334 | |
| chr10:119,872,104–119,873,627 | 19.8 kb | Distal (>10kb) Multiome | 835 | |
| chr10:119,889,124–119,889,537 | 3.2 kb | Proximal (<10kb) | 7 | |
| chr10:119,892,259–119,893,097 | 123 bp | At TSS Multiome | 957 | |
| chr10:120,127,597–120,128,654 | 235.3 kb | Distal (>10kb) Multiome | 203 |
Genomic view of the SEC23IP 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.