ZNF93

zinc finger protein 93 | FLJ12488, HPF34, TF34, ZNF505

Enables DNA-binding transcription repressor activity, RNA polymerase II-specific. Involved in transposable element silencing. Predicted to be located in nucleoplasm. Predicted to be active in nucleus. [provided by Alliance of Genome Resources, Jul 2025]

Member of: DE-4 DE-4.4 Developmental clusters: GC5

Biological processes 14 terms

DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription repressor activity, RNA polymerase II-specific (GO:0001227)DNA-binding transcription repressor activity, RNA polymerase II-specific (GO:0001227)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)negative regulation of transcription by RNA polymerase II (GO:0000122)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)transposable element silencing (GO:0010526)transposable element silencing (GO:0010526)zinc ion binding (GO:0008270)

Expression (TPM)

TFs regulating ZNF93 0 TFs

Transcription factors with Perturb-seq knockdown data for ZNF93. 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 = ZNF93 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 ZNF93

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of ZNF93, 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
chr19:19,618,285–19,619,315	282.1 kb	Distal (>10kb) Multiome	414
chr19:19,627,596–19,629,138	272.5 kb	Distal (>10kb) Multiome	543
chr19:19,637,337–19,638,344	263.3 kb	Distal (>10kb) Multiome	153
chr19:19,643,155–19,644,142	257.2 kb	Distal (>10kb) Multiome	595
chr19:19,663,091–19,664,414	237.0 kb	Distal (>10kb) Multiome HiCAR	848
chr19:19,668,196–19,669,404	232.2 kb	Distal (>10kb) Multiome HiCAR	778
chr19:19,732,628–19,733,489	167.8 kb	Distal (>10kb) Multiome	701
chr19:19,775,960–19,777,126	124.4 kb	Distal (>10kb) Multiome	738
chr19:19,860,773–19,861,447	39.7 kb	Distal (>10kb) Multiome	112
chr19:19,865,643–19,866,347	35.1 kb	Distal (>10kb) Multiome	685
chr19:19,866,439–19,867,170	34.0 kb	Distal (>10kb) Multiome	306
chr19:19,900,253–19,900,557	387 bp	At TSS	159
chr19:19,900,670–19,901,891	30 bp	At TSS Multiome	405
chr19:20,038,984–20,039,716	138.5 kb	Distal (>10kb) Multiome	495
chr19:20,051,726–20,052,860	151.3 kb	Distal (>10kb) Multiome	402
chr19:20,066,768–20,067,242	166.1 kb	Distal (>10kb) Multiome	8
chr19:20,067,957–20,069,262	168.0 kb	Distal (>10kb) Multiome	17
chr19:20,077,737–20,078,423	177.0 kb	Distal (>10kb) Multiome	212
chr19:20,082,410–20,083,233	181.9 kb	Distal (>10kb) Multiome	155
chr19:20,166,957–20,167,632	266.3 kb	Distal (>10kb) Multiome	222

Genome Browser

Genomic view of the ZNF93 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.