ATXN2
ataxin 2 | ATX2, SCA2, TNRC13

This gene belongs to a group of genes that is associated with microsatellite-expansion diseases, a class of neurological and neuromuscular disorders caused by expansion of short stretches of repetitive DNA. The protein encoded by this gene has two globular domains near the N-terminus, one of which contains a clathrin-mediated trans-Golgi signal and an endoplasmic reticulum exit signal. The encoded cytoplasmic protein localizes to the endoplasmic reticulum and plasma membrane, is involved in endocytosis, and modulates mTOR signals, modifying ribosomal translation and mitochondrial function. The N-terminal region of the protein contains a polyglutamine tract of 14-31 residues that can be expanded in the pathogenic state to 32-200 residues. Intermediate length expansions of this tract increase susceptibility to amyotrophic lateral sclerosis, while long expansions of this tract result in spinocerebellar ataxia-2, an autosomal-dominantly inherited, neurodegenerative disorder. Genome-wide association studies indicate that loss-of-function mutations in this gene may be associated with susceptibility to type I diabetes, obesity and hypertension. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2016]

Member of: DE-2 DE-2.1
Biological processes 22 terms
Expression (TPM)
ATXN2 — as a Regulated Gene

TFs regulating ATXN2 0 TFs

Transcription factors with Perturb-seq knockdown data for ATXN2. 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 = ATXN2 upregulated upon KD; negative = downregulated). The Outlier column indicates whether this gene is in the top or bottom 5% of all TF knockdown effects.

Data: Effect:
TF Mean coef Binding Outlier TF→Gene link

Elements linked to ATXN2

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of ATXN2, 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
chr12:111,339,291–111,339,878 259.7 kb Distal (>10kb) Multiome 62
chr12:111,353,832–111,354,344 245.2 kb Distal (>10kb) Multiome 33
chr12:111,368,490–111,369,521 230.2 kb Distal (>10kb) Multiome 663
chr12:111,404,305–111,407,139 193.7 kb Distal (>10kb) Multiome 928
chr12:111,597,725–111,600,125 274 bp At TSS Multiome 973
chr12:111,685,452–111,686,504 86.7 kb Distal (>10kb) Multiome 858
chr12:111,766,539–111,767,436 167.6 kb Distal (>10kb) Multiome 732
chr12:111,775,668–111,776,178 176.7 kb Distal (>10kb) Multiome 448
chr12:111,841,636–111,842,766 242.8 kb Distal (>10kb) Multiome 963

Genome Browser

Genomic view of the ATXN2 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.

chr12:111,329,291 – 111,852,766
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq