This gene encodes a member of the Kruppel family of C2H2-type zinc-finger transcription factor proteins. The encoded protein acts as a transcriptional activator. Two transcript variants encoding distinct isoforms have been identified for this gene. Other transcript variants have been described, but their full length sequence has not been determined. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for ZNF398. 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 = ZNF398 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 ZNF398, 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 |
|---|---|---|---|---|
| chr7:148,883,285–148,885,276 | 242.0 kb | Distal (>10kb) Multiome | 917 | |
| chr7:148,940,713–148,941,315 | 185.3 kb | Distal (>10kb) Multiome | 792 | |
| chr7:148,966,846–148,967,346 | 159.4 kb | Distal (>10kb) Multiome | 532 | |
| chr7:148,982,929–148,984,226 | 142.7 kb | Distal (>10kb) Multiome | 671 | |
| chr7:148,987,066–148,988,336 | 138.9 kb | Distal (>10kb) Multiome | 765 | |
| chr7:149,027,878–149,029,294 | 97.7 kb | Distal (>10kb) Multiome | 992 | |
| chr7:149,065,040–149,066,286 | 60.5 kb | Distal (>10kb) Multiome | 971 | |
| chr7:149,071,460–149,072,205 | 54.5 kb | Distal (>10kb) Multiome | 300 | |
| chr7:149,090,124–149,091,686 | 35.6 kb | Distal (>10kb) Multiome | 1010 | |
| chr7:149,125,518–149,127,217 | 115 bp | At TSS Multiome | 1147 | |
| chr7:149,127,445–149,127,964 | 1.0 kb | Proximal (<10kb) | 257 | |
| chr7:149,145,364–149,146,036 | 19.2 kb | Distal (>10kb) Multiome | 220 | |
| chr7:149,147,030–149,148,737 | 21.0 kb | Distal (>10kb) Multiome | 938 | |
| chr7:149,149,242–149,149,773 | 1.8 kb | Proximal (<10kb) | 80 | |
| chr7:149,194,998–149,196,417 | 69.1 kb | Distal (>10kb) Multiome | 917 | |
| chr7:149,239,406–149,240,188 | 113.2 kb | Distal (>10kb) Multiome | 889 | |
| chr7:149,261,689–149,262,807 | 135.8 kb | Distal (>10kb) Multiome | 905 | |
| chr7:149,284,774–149,286,087 | 158.8 kb | Distal (>10kb) Multiome | 499 | |
| chr7:149,355,344–149,356,078 | 229.3 kb | Distal (>10kb) Multiome | 329 | |
| chr7:149,414,692–149,415,889 | 288.7 kb | Distal (>10kb) Multiome | 271 | |
| chr7:149,421,846–149,422,651 | 296.0 kb | Distal (>10kb) Multiome | 665 |
Genomic view of the ZNF398 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.