GGA3
golgi associated, gamma adaptin ear containing, ARF binding protein 3 | KIAA0154

This gene encodes a member of the Golgi-localized, gamma adaptin ear-containing, ARF-binding (GGA) family. This family includes 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 have been identified in this gene. [provided by RefSeq, Feb 2010]

Member of: DE-5
Biological processes 39 terms
Golgi apparatus (GO:0005794)Golgi apparatus (GO:0005794)Golgi to plasma membrane protein transport (GO:0043001)Golgi to plasma membrane protein transport (GO:0043001)Golgi to plasma membrane transport (GO:0006893)cargo adaptor activity (GO:0140312)early endosome (GO:0005769)early endosome membrane (GO:0031901)early endosome membrane (GO:0031901)endocytic recycling (GO:0032456)endosome membrane (GO:0010008)endosome membrane (GO:0010008)intracellular protein transport (GO:0006886)intracellular protein transport (GO:0006886)lysosome (GO:0005764)negative regulation of amyloid-beta formation (GO:1902430)phosphatidylinositol binding (GO:0035091)positive regulation of lysosomal protein catabolic process (GO:1905167)protein binding (GO:0005515)protein destabilization (GO:0031648)protein localization to cell surface (GO:0034394)protein localization to cell surface (GO:0034394)protein localization to cell surface (GO:0034394)protein targeting to lysosome (GO:0006622)protein-containing complex (GO:0032991)protein-containing complex binding (GO:0044877)recycling endosome (GO:0055037)recycling endosome membrane (GO:0055038)recycling endosome membrane (GO:0055038)regulation of protein stability (GO:0031647)small GTPase binding (GO:0031267)small GTPase binding (GO:0031267)small GTPase binding (GO:0031267)trans-Golgi network (GO:0005802)trans-Golgi network (GO:0005802)trans-Golgi network (GO:0005802)ubiquitin binding (GO:0043130)ubiquitin binding (GO:0043130)vesicle-mediated transport (GO:0016192)
Expression (TPM)
GGA3 — as a Regulated Gene

TFs regulating GGA3 0 TFs

Transcription factors with Perturb-seq knockdown data for GGA3. 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 = GGA3 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 GGA3

Open chromatin peaks (ATAC-seq) in the genomic neighbourhood of GGA3, 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
chr17:74,972,019–74,973,116 288.9 kb Distal (>10kb) Multiome 607
chr17:74,982,006–74,982,936 279.2 kb Distal (>10kb) Multiome 952
chr17:74,987,081–74,988,770 274.0 kb Distal (>10kb) Multiome 702
chr17:75,012,158–75,013,285 248.9 kb Distal (>10kb) Multiome 1058
chr17:75,033,550–75,035,757 226.5 kb Distal (>10kb) Multiome 1228
chr17:75,046,451–75,047,855 214.5 kb Distal (>10kb) Multiome 961
chr17:75,087,344–75,088,429 173.8 kb Distal (>10kb) Multiome 717
chr17:75,089,013–75,089,866 172.2 kb Distal (>10kb) Multiome 406
chr17:75,104,838–75,106,094 155.8 kb Distal (>10kb) Multiome 454
chr17:75,109,401–75,110,734 151.7 kb Distal (>10kb) Multiome 762
chr17:75,113,757–75,114,535 147.4 kb Distal (>10kb) Multiome 585
chr17:75,130,577–75,132,090 129.9 kb Distal (>10kb) Multiome 990
chr17:75,153,354–75,155,273 107.0 kb Distal (>10kb) Multiome 993
chr17:75,182,199–75,183,441 78.6 kb Distal (>10kb) Multiome 908
chr17:75,205,060–75,205,995 56.1 kb Distal (>10kb) Multiome 975
chr17:75,240,373–75,240,941 20.9 kb Distal (>10kb) Multiome 436
chr17:75,254,189–75,254,403 7.2 kb Proximal (<10kb) 2
chr17:75,261,304–75,262,404 125 bp At TSS Multiome 983
chr17:75,267,687–75,267,942 6.1 kb Proximal (<10kb) 516
chr17:75,270,231–75,271,942 9.7 kb Proximal (<10kb) Multiome 946
chr17:75,288,761–75,289,874 27.9 kb Distal (>10kb) Multiome 941
chr17:75,346,809–75,347,324 85.6 kb Distal (>10kb) Multiome 265
chr17:75,393,479–75,394,300 132.3 kb Distal (>10kb) Multiome HiCAR 834
chr17:75,404,856–75,406,161 144.2 kb Distal (>10kb) Multiome HiCAR 917
chr17:75,456,149–75,457,264 195.0 kb Distal (>10kb) Multiome 865
chr17:75,481,081–75,481,680 219.8 kb Distal (>10kb) Multiome 64
chr17:75,514,425–75,517,171 254.1 kb Distal (>10kb) Multiome 1158
chr17:75,524,764–75,527,160 263.9 kb Distal (>10kb) Multiome 951
chr17:75,549,465–75,550,388 288.4 kb Distal (>10kb) Multiome 602

Genome Browser

Genomic view of the GGA3 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.

chr17:74,962,019 – 75,560,388
Proximal 1 kb Distal 10 kb Multiome HiCAR ATAC-seq RNA-seq
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