Enables histone H3K9me/H3K9me2 demethylase activity; iron ion binding activity; and nuclear androgen receptor binding activity. Involved in androgen receptor signaling pathway; formaldehyde biosynthetic process; and positive regulation of DNA-templated transcription. Located in nucleoplasm. Implicated in cervical cancer and colon cancer. Biomarker of Ewing sarcoma; hepatocellular carcinoma; nasopharynx carcinoma; and prostate cancer. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for KDM3A. 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 = KDM3A 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 KDM3A, 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 |
|---|---|---|---|---|
| chr2:86,172,557–86,173,357 | 268.6 kb | Distal (>10kb) Multiome | 74 | |
| chr2:86,194,668–86,196,003 | 246.1 kb | Distal (>10kb) Multiome | 1056 | |
| chr2:86,336,997–86,338,159 | 103.8 kb | Distal (>10kb) Multiome | 267 | |
| chr2:86,368,200–86,368,804 | 72.9 kb | Distal (>10kb) Multiome | 227 | |
| chr2:86,440,468–86,442,936 | 251 bp | At TSS Multiome | 1229 | |
| chr2:86,562,703–86,563,941 | 121.9 kb | Distal (>10kb) Multiome | 1017 | |
| chr2:86,622,458–86,624,092 | 182.4 kb | Distal (>10kb) Multiome | 913 | |
| chr2:86,719,886–86,720,543 | 278.8 kb | Distal (>10kb) Multiome | 245 |
Genomic view of the KDM3A 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.