The protein encoded by this gene contains six PDZ domains and shares sequence similarity with pro-interleukin-16 (pro-IL-16). Like pro-IL-16, the encoded protein localizes to the endoplasmic reticulum and is thought to be cleaved by a caspase to produce a secreted peptide containing two PDZ domains. In addition, this gene is upregulated in primary prostate tumors and may be involved in the early stages of prostate tumorigenesis. [provided by RefSeq, Dec 2015]
Transcription factors with Perturb-seq knockdown data for PDZD2. 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 = PDZD2 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 PDZD2, 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 |
|---|---|---|---|---|
| chr5:31,426,930–31,427,798 | 211.7 kb | Distal (>10kb) Multiome | 133 | |
| chr5:31,531,635–31,532,846 | 106.9 kb | Distal (>10kb) Multiome | 818 | |
| chr5:31,618,104–31,619,083 | 20.3 kb | Distal (>10kb) Multiome | 172 | |
| chr5:31,636,106–31,636,391 | 2.7 kb | Proximal (<10kb) | 31 | |
| chr5:31,638,486–31,640,394 | 13 bp | At TSS Multiome | 551 | |
| chr5:31,815,109–31,815,703 | 176.2 kb | Distal (>10kb) Multiome HiCAR | 23 | |
| chr5:31,854,155–31,855,677 | 215.9 kb | Distal (>10kb) Multiome | 435 | |
| chr5:31,859,844–31,860,144 | 4.9 kb | Proximal (<10kb) | 33 |
Genomic view of the PDZD2 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.