Predicted to enable nuclear thyroid hormone receptor binding activity. Predicted to be involved in box C/D snoRNP assembly; maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA); and snoRNA localization. Located in cytoplasm and nucleus. Implicated in PEHO syndrome. [provided by Alliance of Genome Resources, Jul 2025]
Transcription factors with Perturb-seq knockdown data for ZNHIT3. 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 = ZNHIT3 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 ZNHIT3, 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 |
|---|---|---|---|---|
| chr17:35,930,498–35,930,976 | 555.9 kb | Distal (>10kb) Multiome HiCAR | 353 | |
| chr17:35,942,380–35,943,327 | 543.8 kb | Distal (>10kb) Multiome HiCAR | 169 | |
| chr17:36,182,854–36,183,349 | 303.5 kb | Distal (>10kb) Multiome HiCAR | 128 | |
| chr17:36,482,565–36,483,505 | 3.6 kb | Proximal (<10kb) Multiome | 734 | |
| chr17:36,486,066–36,487,171 | 54 bp | At TSS Multiome | 719 | |
| chr17:36,496,122–36,496,675 | 9.4 kb | Proximal (<10kb) | 38 | |
| chr17:36,534,162–36,535,815 | 48.6 kb | Distal (>10kb) Multiome | 1014 | |
| chr17:36,544,068–36,546,005 | 58.8 kb | Distal (>10kb) Multiome | 968 | |
| chr17:36,591,430–36,592,642 | 105.1 kb | Distal (>10kb) Multiome | 585 | |
| chr17:36,600,997–36,602,715 | 114.8 kb | Distal (>10kb) Multiome | 823 | |
| chr17:36,612,842–36,614,639 | 126.7 kb | Distal (>10kb) Multiome | 111 | |
| chr17:36,657,825–36,658,420 | 171.4 kb | Distal (>10kb) Multiome | 220 | |
| chr17:36,722,258–36,722,869 | 235.8 kb | Distal (>10kb) Multiome | 428 | |
| chr17:36,727,484–36,729,207 | 241.6 kb | Distal (>10kb) Multiome | 373 | |
| chr17:36,742,321–36,742,786 | 255.9 kb | Distal (>10kb) Multiome | 38 | |
| chr17:38,414,746–38,415,878 | 1928.3 kb | Distal (>10kb) Multiome HiCAR | 792 |
Genomic view of the ZNHIT3 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.