HESX1

HESX homeobox 1 | ANF, RPX

This gene encodes a conserved homeobox protein that is a transcriptional repressor in the developing forebrain and pituitary gland. Mutations in this gene are associated with septooptic dysplasia, HESX1-related growth hormone deficiency, and combined pituitary hormone deficiency. [provided by RefSeq, Jul 2008]

Developmental clusters: GC5

Biological processes 35 terms

DNA binding (GO:0003677)DNA binding (GO:0003677)DNA binding (GO:0003677)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 repressor activity, RNA polymerase II-specific (GO:0001227)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)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 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)brain development (GO:0007420)chromatin (GO:0000785)chromatin binding (GO:0003682)forebrain development (GO:0030900)gene expression (GO:0010467)negative regulation of transcription by RNA polymerase II (GO:0000122)negative regulation of transcription by RNA polymerase II (GO:0000122)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)pituitary gland development (GO:0021983)pituitary gland development (GO:0021983)pituitary gland development (GO:0021983)protein binding (GO:0005515)protein homodimerization activity (GO:0042803)protein-DNA complex (GO:0032993)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)sequence-specific DNA binding (GO:0043565)sequence-specific double-stranded DNA binding (GO:1990837)sequence-specific double-stranded DNA binding (GO:1990837)

Expression (TPM)

TFs regulating HESX1 0 TFs

Transcription factors with Perturb-seq knockdown data for HESX1. 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 = HESX1 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 HESX1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of HESX1, 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
chr3:57,078,355–57,079,870	120.7 kb	Distal (>10kb) Multiome	674
chr3:57,130,457–57,131,979	69.0 kb	Distal (>10kb) Multiome	353
chr3:57,158,954–57,159,929	40.6 kb	Distal (>10kb) Multiome	259
chr3:57,160,383–57,161,092	39.2 kb	Distal (>10kb) Multiome HiCAR	147
chr3:57,164,404–57,166,039	34.6 kb	Distal (>10kb) Multiome HiCAR	455
chr3:57,169,750–57,170,529	29.7 kb	Distal (>10kb) Multiome HiCAR	491
chr3:57,194,399–57,195,064	5.2 kb	Proximal (<10kb) Multiome	31
chr3:57,196,993–57,197,243	2.7 kb	Proximal (<10kb)	43
chr3:57,199,761–57,200,263	61 bp	At TSS Multiome	256
chr3:57,227,073–57,228,173	27.7 kb	Distal (>10kb) Multiome	859

Genome Browser

Genomic view of the HESX1 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.