SOX13

SRY-box transcription factor 13 | ICA12, MGC117216, Sox-13

This gene encodes a member of the SOX (SRY-related HMG-box) family of transcription factors involved in the regulation of embryonic development and in the determination of cell fate. The encoded protein may act as a transcriptional regulator after forming a protein complex with other proteins. It has also been determined to be a type-1 diabetes autoantigen, also known as islet cell antibody 12. [provided by RefSeq, Jul 2008]

Member of: DE-3

Biological processes 38 terms

DNA binding (GO:0003677)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 repressor activity (GO:0001217)DNA-binding transcription repressor activity (GO:0001217)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 transcription regulatory region sequence-specific DNA binding (GO:0000977)anatomical structure morphogenesis (GO:0009653)cell fate commitment (GO:0045165)chromatin (GO:0000785)cytoplasm (GO:0005737)cytoplasm (GO:0005737)gamma-delta T cell differentiation (GO:0042492)gamma-delta T cell differentiation (GO:0042492)identical protein binding (GO:0042802)negative regulation of DNA-templated transcription (GO:0045892)negative regulation of canonical Wnt signaling pathway (GO:0090090)negative regulation of transcription by RNA polymerase II (GO:0000122)nucleoplasm (GO:0005654)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)nucleus (GO:0005634)positive regulation of brown fat cell differentiation (GO:0090336)positive regulation of brown fat cell differentiation (GO:0090336)positive regulation of gamma-delta T cell differentiation (GO:0045588)protein binding (GO:0005515)regulation of DNA-templated transcription (GO:0006355)regulation of DNA-templated transcription (GO:0006355)regulation of transcription by RNA polymerase II (GO:0006357)sequence-specific DNA binding (GO:0043565)sequence-specific DNA binding (GO:0043565)spinal cord oligodendrocyte cell differentiation (GO:0021529)spinal cord oligodendrocyte cell differentiation (GO:0021529)transcription cis-regulatory region binding (GO:0000976)transcription cis-regulatory region binding (GO:0000976)

Expression (TPM)

TFs regulating SOX13 0 TFs

Transcription factors with Perturb-seq knockdown data for SOX13. 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 = SOX13 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 SOX13

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of SOX13, 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
chr1:203,795,422–203,796,461	277.4 kb	Distal (>10kb) Multiome	784
chr1:203,861,102–203,862,191	211.6 kb	Distal (>10kb) Multiome HiCAR	1090
chr1:203,996,153–203,997,412	76.2 kb	Distal (>10kb) Multiome	210
chr1:204,065,124–204,065,934	7.7 kb	Proximal (<10kb) Multiome	155
chr1:204,072,301–204,075,400	86 bp	At TSS Multiome	828
chr1:204,078,065–204,078,999	5.4 kb	Proximal (<10kb) Multiome	348
chr1:204,079,587–204,080,941	7.4 kb	Proximal (<10kb) Multiome	492
chr1:204,084,225–204,084,936	11.4 kb	Distal (>10kb) Multiome	439
chr1:204,108,483–204,109,315	35.7 kb	Distal (>10kb) Multiome	151
chr1:204,128,928–204,129,568	56.1 kb	Distal (>10kb) Multiome HiCAR	440
chr1:204,151,279–204,152,703	78.9 kb	Distal (>10kb) Multiome	556
chr1:204,213,764–204,214,668	141.1 kb	Distal (>10kb) Multiome	702
chr1:204,287,567–204,288,449	214.9 kb	Distal (>10kb) Multiome	373
chr1:204,289,294–204,289,779	216.3 kb	Distal (>10kb) Multiome	126
chr1:204,350,954–204,351,460	278.0 kb	Distal (>10kb) Multiome	138
chr1:204,363,217–204,363,961	290.5 kb	Distal (>10kb) Multiome	524

Genome Browser

Genomic view of the SOX13 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.