EXOSC1
exosome component 1 | CGI-108, CSL4, Csl4p, SKI4, Ski4p, hCsl4p, p13

This gene encodes a core component of the exosome. The mammalian exosome is required for rapid degradation of AU rich element-containing RNAs but not for poly(A) shortening. The association of this protein with the exosome is mediated by protein-protein interactions with ribosomal RNA-processing protein 42 and ribosomal RNA-processing protein 46. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Jan 2016]

Member of: DE-1 DE-1.8 Developmental clusters: GC5
Biological processes 22 terms
RNA binding (GO:0003723)RNA binding (GO:0003723)RNA catabolic process (GO:0006401)RNA exonuclease activity (GO:0004532)RNA processing (GO:0006396)RNA processing (GO:0006396)cytoplasm (GO:0005737)cytoplasm (GO:0005737)cytosol (GO:0005829)cytosol (GO:0005829)exosome (RNase complex) (GO:0000178)exosome (RNase complex) (GO:0000178)exosome (RNase complex) (GO:0000178)nuclear exosome (RNase complex) (GO:0000176)nucleic acid binding (GO:0003676)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleolus (GO:0005730)nucleoplasm (GO:0005654)nucleus (GO:0005634)nucleus (GO:0005634)protein binding (GO:0005515)
Expression (TPM)
EXOSC1 — as a Regulated Gene

TFs regulating EXOSC1 0 TFs

Transcription factors with Perturb-seq knockdown data for EXOSC1. 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 = EXOSC1 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 EXOSC1

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of EXOSC1, 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
chr10:97,179,559–97,180,186 266.0 kb Distal (>10kb) Multiome 190
chr10:97,185,462–97,186,037 260.1 kb Distal (>10kb) Multiome 248
chr10:97,195,967–97,196,850 249.5 kb Distal (>10kb) Multiome 469
chr10:97,291,972–97,293,103 153.3 kb Distal (>10kb) Multiome 945
chr10:97,318,840–97,320,386 126.8 kb Distal (>10kb) Multiome 836
chr10:97,333,472–97,335,742 111.0 kb Distal (>10kb) Multiome 917
chr10:97,336,929–97,337,706 108.7 kb Distal (>10kb) Multiome 362
chr10:97,400,817–97,401,691 44.7 kb Distal (>10kb) Multiome 644
chr10:97,407,246–97,407,739 38.5 kb Distal (>10kb) Multiome 539
chr10:97,418,830–97,419,461 26.9 kb Distal (>10kb) Multiome 323
chr10:97,425,050–97,426,796 19.9 kb Distal (>10kb) Multiome 715
chr10:97,445,521–97,446,585 166 bp At TSS Multiome 802
chr10:97,497,718–97,499,773 52.7 kb Distal (>10kb) Multiome 967
chr10:97,553,598–97,554,047 107.8 kb Distal (>10kb) Multiome 340
chr10:97,632,775–97,633,915 187.5 kb Distal (>10kb) Multiome 725
chr10:97,640,236–97,641,335 194.6 kb Distal (>10kb) Multiome 712
chr10:97,686,724–97,687,987 241.4 kb Distal (>10kb) Multiome 993
chr10:97,713,223–97,715,263 267.8 kb Distal (>10kb) Multiome 639
chr10:97,736,595–97,737,824 291.1 kb Distal (>10kb) Multiome 1009

Genome Browser

Genomic view of the EXOSC1 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.

chr10:97,169,559 – 97,747,824
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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