This gene encodes a member of the Golgi-localized, gamma adaptin ear-containing, ARF-binding (GGA) protein family. Members of this family are ubiquitous coat proteins that regulate the trafficking of proteins between the trans-Golgi network and the lysosome. These proteins share an amino-terminal VHS domain which mediates sorting of the mannose 6-phosphate receptors at the trans-Golgi network. They also contain a carboxy-terminal region with homology to the ear domain of gamma-adaptins. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2008]
Transcription factors with Perturb-seq knockdown data for GGA1. 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 = GGA1 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 |
|---|
Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of GGA1, 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 |
|---|---|---|---|---|
| chr22:37,419,824–37,420,580 | 188.6 kb | Distal (>10kb) Multiome | 150 | |
| chr22:37,518,831–37,519,884 | 89.3 kb | Distal (>10kb) Multiome | 548 | |
| chr22:37,545,569–37,546,885 | 62.5 kb | Distal (>10kb) Multiome | 682 | |
| chr22:37,559,893–37,560,965 | 48.5 kb | Distal (>10kb) Multiome | 589 | |
| chr22:37,569,013–37,570,549 | 39.3 kb | Distal (>10kb) Multiome | 695 | |
| chr22:37,601,602–37,602,039 | 6.4 kb | Proximal (<10kb) | 274 | |
| chr22:37,607,051–37,607,408 | 1.1 kb | Proximal (<10kb) | 558 | |
| chr22:37,608,044–37,609,455 | 56 bp | At TSS Multiome | 920 | |
| chr22:37,639,157–37,639,951 | 30.7 kb | Distal (>10kb) Multiome | 427 | |
| chr22:37,658,172–37,659,508 | 49.8 kb | Distal (>10kb) Multiome | 722 | |
| chr22:37,674,916–37,675,641 | 66.6 kb | Distal (>10kb) Multiome | 607 | |
| chr22:37,676,590–37,677,674 | 68.4 kb | Distal (>10kb) Multiome | 655 | |
| chr22:37,686,104–37,686,784 | 77.6 kb | Distal (>10kb) Multiome | 866 | |
| chr22:37,696,496–37,697,685 | 88.1 kb | Distal (>10kb) Multiome | 428 | |
| chr22:37,745,641–37,746,995 | 137.3 kb | Distal (>10kb) Multiome | 627 | |
| chr22:37,802,124–37,802,989 | 193.6 kb | Distal (>10kb) Multiome | 603 | |
| chr22:37,804,679–37,805,768 | 196.4 kb | Distal (>10kb) Multiome | 763 | |
| chr22:37,807,436–37,808,267 | 199.0 kb | Distal (>10kb) Multiome | 766 | |
| chr22:37,817,672–37,819,114 | 209.0 kb | Distal (>10kb) Multiome | 713 | |
| chr22:37,824,524–37,825,593 | 216.1 kb | Distal (>10kb) Multiome | 173 | |
| chr22:37,843,748–37,844,743 | 235.6 kb | Distal (>10kb) Multiome | 798 | |
| chr22:37,849,215–37,849,709 | 240.6 kb | Distal (>10kb) Multiome | 753 | |
| chr22:37,905,849–37,906,846 | 297.4 kb | Distal (>10kb) Multiome | 552 |
Genomic view of the GGA1 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.