ZKSCAN4

zinc finger with KRAB and SCAN domains 4 | FLJ32136, P1P373C6, ZSCAN36, p373c6.1, ZNF307, ZNF427

Enables identical protein binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm. [provided by Alliance of Genome Resources, Jul 2025]

Biological processes 10 terms

DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)identical protein binding (GO:0042802)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)

Expression (TPM)

TFs regulating ZKSCAN4 0 TFs

Transcription factors with Perturb-seq knockdown data for ZKSCAN4. 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 = ZKSCAN4 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 ZKSCAN4

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of ZKSCAN4, 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
chr6:28,079,998–28,081,441	172.1 kb	Distal (>10kb) Multiome	1054
chr6:28,104,510–28,105,291	147.4 kb	Distal (>10kb) Multiome	927
chr6:28,136,684–28,137,470	115.2 kb	Distal (>10kb) Multiome	1035
chr6:28,141,479–28,142,195	110.4 kb	Distal (>10kb) Multiome	1010
chr6:28,171,036–28,171,660	80.8 kb	Distal (>10kb) Multiome	67
chr6:28,225,159–28,225,667	26.9 kb	Distal (>10kb) Multiome	914
chr6:28,251,697–28,251,911	357 bp	At TSS	203
chr6:28,252,196–28,252,439	at TSS	At TSS	719
chr6:28,281,346–28,282,033	29.3 kb	Distal (>10kb) Multiome	751
chr6:28,335,073–28,336,704	83.5 kb	Distal (>10kb) Multiome	1036
chr6:28,349,817–28,350,289	97.8 kb	Distal (>10kb) Multiome	884
chr6:28,356,177–28,356,613	104.1 kb	Distal (>10kb) Multiome	569
chr6:28,383,266–28,383,869	131.3 kb	Distal (>10kb) Multiome	821
chr6:28,399,292–28,400,183	147.5 kb	Distal (>10kb) Multiome	978
chr6:28,443,132–28,443,643	191.2 kb	Distal (>10kb) Multiome	481
chr6:28,468,726–28,469,991	217.0 kb	Distal (>10kb) Multiome	36
chr6:28,542,393–28,543,473	290.5 kb	Distal (>10kb) Multiome	775

Genome Browser

Genomic view of the ZKSCAN4 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.