RUNX1

RUNX1

RUNX family transcription factor 1 | AMLCR1, PEBP2A2, AML1, CBFA2

Core binding factor (CBF) is a heterodimeric transcription factor that binds to the core element of many enhancers and promoters. The protein encoded by this gene represents the alpha subunit of CBF and is thought to be involved in the development of normal hematopoiesis. Chromosomal translocations involving this gene are well-documented and have been associated with several types of leukemia. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]

Biological processes 65 terms

ATP binding (GO:0005524)DNA binding (GO:0003677)DNA binding (GO:0003677)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription activator activity, RNA polymerase II-specific (GO:0001228)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity (GO:0003700)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor activity, RNA polymerase II-specific (GO:0000981)DNA-binding transcription factor binding (GO:0140297)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977)RNA polymerase II transcription regulatory region sequence-specific DNA binding (GO:0000977)calcium ion binding (GO:0005509)cardiac muscle tissue regeneration (GO:0061026)chondrocyte differentiation (GO:0002062)chromatin (GO:0000785)core-binding factor complex (GO:0016513)core-binding factor complex (GO:0016513)hematopoietic stem cell proliferation (GO:0071425)hemopoiesis (GO:0030097)hemopoiesis (GO:0030097)hemopoiesis (GO:0030097)myeloid cell differentiation (GO:0030099)myeloid leukocyte differentiation (GO:0002573)negative regulation of CD4-positive, alpha-beta T cell differentiation (GO:0043371)negative regulation of granulocyte differentiation (GO:0030853)negative regulation of transcription by RNA polymerase II (GO:0000122)neuron differentiation (GO:0030182)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)ossification (GO:0001503)peripheral nervous system neuron development (GO:0048935)positive regulation of CD8-positive, alpha-beta T cell differentiation (GO:0043378)positive regulation of DNA-templated transcription (GO:0045893)positive regulation of angiogenesis (GO:0045766)positive regulation of collagen biosynthetic process (GO:0032967)positive regulation of developmental process (GO:0051094)positive regulation of extracellular matrix organization (GO:1903055)positive regulation of granulocyte differentiation (GO:0030854)positive regulation of interleukin-2 production (GO:0032743)positive regulation of multicellular organismal process (GO:0051240)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)positive regulation of transcription by RNA polymerase II (GO:0045944)protein binding (GO:0005515)protein heterodimerization activity (GO:0046982)protein homodimerization activity (GO:0042803)regulation of DNA-templated transcription (GO:0006355)regulation of cardiac muscle cell proliferation (GO:0060043)regulation of cell differentiation (GO:0045595)regulation of connective tissue replacement (GO:1905203)regulation of multicellular organismal development (GO:2000026)regulation of plasminogen activation (GO:0010755)regulation of transcription by RNA polymerase II (GO:0006357)regulation of transcription by RNA polymerase II (GO:0006357)sequence-specific double-stranded DNA binding (GO:1990837)transcription cis-regulatory region binding (GO:0000976)transcription coactivator binding (GO:0001223)transcription corepressor binding (GO:0001222)

Expression (TPM)

TFs regulating RUNX1 0 TFs

Transcription factors with Perturb-seq knockdown data for RUNX1. 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 = RUNX1 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 RUNX1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of RUNX1, 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
	chr21:34,614,583–34,615,668	273.4 kb	Distal (>10kb) Multiome	722
	chr21:34,745,569–34,746,197	143.0 kb	Distal (>10kb) Multiome HiCAR	505
	chr21:34,865,900–34,866,326	22.6 kb	Distal (>10kb) Multiome	314
	chr21:34,886,647–34,887,182	1.5 kb	Proximal (<10kb)	361
	chr21:34,888,547–34,890,899	1.5 kb	Proximal (<10kb) Multiome	896
	chr21:34,891,011–34,891,578	2.3 kb	Proximal (<10kb)	175
	chr21:35,525,807–35,526,243	637.3 kb	Distal (>10kb) Multiome HiCAR	59

Genome Browser

Genomic view of the RUNX1 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.