Predicted to enable chromatin DNA binding activity; histone H3K9 demethylase activity; and transcription coregulator activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm. Biomarker of acute lymphoblastic leukemia; breast cancer; colorectal cancer; and lung non-small cell carcinoma. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for KDM3B. 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 = KDM3B 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 KDM3B, 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 |
|---|---|---|---|---|
| chr5:138,095,141–138,095,876 | 257.3 kb | Distal (>10kb) Multiome | 194 | |
| chr5:138,178,349–138,179,428 | 173.8 kb | Distal (>10kb) Multiome | 789 | |
| chr5:138,212,899–138,214,126 | 139.2 kb | Distal (>10kb) Multiome | 747 | |
| chr5:138,241,684–138,242,313 | 110.6 kb | Distal (>10kb) Multiome | 397 | |
| chr5:138,247,699–138,248,212 | 104.7 kb | Distal (>10kb) Multiome | 13 | |
| chr5:138,274,126–138,274,706 | 78.3 kb | Distal (>10kb) Multiome | 161 | |
| chr5:138,331,426–138,332,354 | 20.7 kb | Distal (>10kb) Multiome | 686 | |
| chr5:138,337,358–138,339,397 | 14.5 kb | Distal (>10kb) Multiome | 1134 | |
| chr5:138,352,125–138,353,730 | 45 bp | At TSS Multiome | 868 | |
| chr5:138,355,033–138,355,245 | 2.3 kb | Proximal (<10kb) | 160 | |
| chr5:138,438,317–138,439,353 | 86.3 kb | Distal (>10kb) Multiome | 421 | |
| chr5:138,449,690–138,450,452 | 97.5 kb | Distal (>10kb) Multiome | 486 | |
| chr5:138,463,424–138,467,199 | 112.5 kb | Distal (>10kb) Multiome | 1117 | |
| chr5:138,489,025–138,489,656 | 136.7 kb | Distal (>10kb) Multiome | 185 | |
| chr5:138,491,730–138,492,628 | 139.5 kb | Distal (>10kb) Multiome | 627 | |
| chr5:138,542,539–138,543,997 | 190.6 kb | Distal (>10kb) Multiome | 973 | |
| chr5:138,574,967–138,576,411 | 223.0 kb | Distal (>10kb) Multiome | 1066 |
Genomic view of the KDM3B 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.