The protein encoded by this gene is a member of the protein tyrosine phosphatase (PTP) family. PTPs are signaling molecules that regulate a variety of cellular processes including cell growth, differentiation, mitotic cycle, and oncogenic transformation. This PTP is a large intracellular protein. It has a catalytic PTP domain at its C-terminus and two major structural domains: a region with five PDZ domains and a FERM domain that binds to plasma membrane and cytoskeletal elements. This PTP was found to interact with, and dephosphorylate, Fas receptor and IkappaBalpha through the PDZ domains. This suggests it has a role in Fas mediated programmed cell death. This PTP was also shown to interact with GTPase-activating protein, and thus may function as a regulator of Rho signaling pathways. Four alternatively spliced transcript variants, which encode distinct proteins, have been reported. [provided by RefSeq, Oct 2008]
Transcription factors with Perturb-seq knockdown data for PTPN13. 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 = PTPN13 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 PTPN13, 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 |
|---|---|---|---|---|
| chr4:86,309,328–86,310,316 | 284.4 kb | Distal (>10kb) Multiome | 57 | |
| chr4:86,403,273–86,403,939 | 190.6 kb | Distal (>10kb) Multiome | 107 | |
| chr4:86,472,460–86,473,001 | 121.6 kb | Distal (>10kb) Multiome | 124 | |
| chr4:86,476,047–86,476,574 | 118.2 kb | Distal (>10kb) Multiome | 43 | |
| chr4:86,476,717–86,477,944 | 116.9 kb | Distal (>10kb) Multiome | 85 | |
| chr4:86,482,713–86,483,298 | 111.2 kb | Distal (>10kb) Multiome | 239 | |
| chr4:86,587,165–86,588,064 | 6.2 kb | Proximal (<10kb) | 147 | |
| chr4:86,593,672–86,595,457 | 80 bp | At TSS Multiome | 633 | |
| chr4:86,891,788–86,892,917 | 297.9 kb | Distal (>10kb) Multiome | 698 |
Genomic view of the PTPN13 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.