ZNF609

zinc finger protein 609 | KIAA0295

Predicted to enable promoter-specific chromatin binding activity. Involved in regulation of myoblast proliferation. Located in nucleoplasm. [provided by Alliance of Genome Resources, Apr 2025]

Member of: DE-3 DE-3.13 Developmental clusters: GC6

Biological processes 17 terms

DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of neuron migration (GO:2001224)positive regulation of neuron migration (GO:2001224)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)promoter-specific chromatin binding (GO:1990841)promoter-specific chromatin binding (GO:1990841)regulation of myoblast proliferation (GO:2000291)regulation of myoblast proliferation (GO:2000291)regulation of transcription by RNA polymerase II (GO:0006357)regulation of transcription by RNA polymerase II (GO:0006357)regulation of transcription by RNA polymerase II (GO:0006357)

Expression (TPM)

TFs regulating ZNF609 0 TFs

Transcription factors with Perturb-seq knockdown data for ZNF609. 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 = ZNF609 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

Rows:

Elements linked to ZNF609

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of ZNF609, 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.

Element	Dist. to TSS	Link type	TFs
chr15:64,162,530–64,163,834	297.5 kb	Distal (>10kb) Multiome	876
chr15:64,355,477–64,356,649	104.5 kb	Distal (>10kb) Multiome	748
chr15:64,381,037–64,381,737	79.2 kb	Distal (>10kb) Multiome	630
chr15:64,387,554–64,388,126	73.0 kb	Distal (>10kb) Multiome	1137
chr15:64,430,220–64,430,746	30.3 kb	Distal (>10kb) Multiome	350
chr15:64,454,397–64,454,640	6.1 kb	Proximal (<10kb)	27
chr15:64,460,117–64,462,256	1.2 kb	Proximal (<10kb) Multiome	930
chr15:64,588,906–64,589,753	128.6 kb	Distal (>10kb) Multiome	112
chr15:64,634,613–64,635,221	174.1 kb	Distal (>10kb) Multiome HiCAR	309
chr15:64,699,707–64,700,384	239.4 kb	Distal (>10kb) Multiome	205
chr15:64,702,680–64,704,073	242.5 kb	Distal (>10kb) Multiome	747

Genome Browser

Genomic view of the ZNF609 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.