PAX7

paired box 7 | Hup1

This gene is a member of the paired box (PAX) family of transcription factors. Members of this gene family typically contain a paired box domain, an octapeptide, and a paired-type homeodomain. These genes play critical roles during fetal development and cancer growth. The specific function of the paired box 7 gene is unknown but speculated to involve tumor suppression since fusion of this gene with a forkhead domain family member has been associated with alveolar rhabdomyosarcoma. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Sep 2008]

Biological processes 23 terms

DNA binding (GO:0003677)DNA-binding transcription factor activity (GO:0003700)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 activity, RNA polymerase II-specific (GO:0000981)RNA polymerase II cis-regulatory region sequence-specific DNA binding (GO:0000978)anatomical structure morphogenesis (GO:0009653)anatomical structure morphogenesis (GO:0009653)chromatin (GO:0000785)negative regulation of apoptotic process (GO:0043066)nervous system development (GO:0007399)nucleus (GO:0005634)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)sequence-specific DNA binding (GO:0043565)sequence-specific double-stranded DNA binding (GO:1990837)skeletal muscle satellite cell differentiation (GO:0014816)skeletal muscle satellite cell differentiation (GO:0014816)

Expression (TPM)

TFs regulating PAX7 0 TFs

Transcription factors with Perturb-seq knockdown data for PAX7. 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 = PAX7 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 PAX7

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of PAX7, 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
chr1:18,490,098–18,490,660	141.1 kb	Distal (>10kb) Multiome	36
chr1:18,630,697–18,631,880	189 bp	At TSS Multiome	133
chr1:18,636,424–18,636,814	4.9 kb	Proximal (<10kb)	90
chr1:18,637,687–18,637,964	6.2 kb	Proximal (<10kb)	68
chr1:18,639,776–18,642,012	9.2 kb	Proximal (<10kb) Multiome	468
chr1:18,642,277–18,643,942	11.4 kb	Distal (>10kb) Multiome	312
chr1:18,646,499–18,647,349	15.5 kb	Distal (>10kb) Multiome	116
chr1:18,649,792–18,650,569	18.7 kb	Distal (>10kb) Multiome	127
chr1:18,651,660–18,652,376	20.5 kb	Distal (>10kb) Multiome	174
chr1:18,722,251–18,722,870	91.0 kb	Distal (>10kb) Multiome	86
chr1:18,794,622–18,795,083	163.3 kb	Distal (>10kb) Multiome	163
chr1:18,902,301–18,903,312	271.3 kb	Distal (>10kb) Multiome	774

Genome Browser

Genomic view of the PAX7 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.