Annotated protein:Sodium- and chloride-dependent GABA transporter 1 (GAT-1) (Solute carrier family 6 member 1). Gene symbol: SLC6A1. Taxonomy: Rattus norvegicus (Rat). Uniprot ID: P23978
antibody wiki:
SynGO gene info:SynGO data @ SLC6A1
Ontology domain:Cellular Component
SynGO term:integral component of presynaptic membrane (GO:0099056)
Synapse type(s):cerebral cortex, GABAergic
Annotated paper:Melone M, et al. "A quantitative analysis of cellular and synaptic localization of GAT-1 and GAT-3 in rat neocortex" Brain Struct Funct. 2015 Mar;220(2):885-97 PMID:24368619
Figure(s):Figure 4a-g, Figure 5a-e and Table 1
Annotation description:The paper quantitatively describes the distribution of GAT-1 and GAT-3 at the rat cortex using pre-embedding peroxidase labeling and postimbedding immunogold labeling.
Figure 2: electron microscopy images of peroxidase-based immunoreactivity in preembedded material of cortical layers 2-3. In figure 2d axonal labeling is evident.
Figure 2I quantifies the fraction of profiles where immunoreactivity was observed in axons or dendrites.
Figure 4a-g expands this analysis . In a-f example images of immunoreactivity in axon terminals, perisynaptic astrocytic processes and post-synaptic elements are shown. In figure 4g a quantification of fraction of profiles where immunoreactivity was observed in the above-mentioned cellular compartments, with a further division into symmetric and asymmetric synapses.
Table 1 presents the density of GAT-1 gold particles (following post-embedding immunogold EM) associated with the plasma membrane of axon terminals of symmetric synapses. Here, a quantification of the background is also given (immunogold labeling of the nuclear compartment), to demonstrate specificity of the labeling.
Figure 5a-e present the analysis of post-embedding immunogold EM profiles where membrane-associated particles were visualized, and quantifies the distance from the active-zone.
Taken together, the data supports a presynaptic localization of GAT-1 in the plasma membrane and membranous cellular compartments in the pre synapse.

1/7/2017 Pim
- Based on the known transmembrane topology of the protein, the "integral component of ... membrane" term was chosen.
Evidence tracking, Biological System:Intact tissue
Evidence tracking, Protein Targeting:Antibody (detection)
Evidence tracking, Experiment Assay:Electron Microscopy
Annotator(s):Noa Lipstein (ORCID:0000-0002-0755-5899)
Cordelia Imig (ORCID:0000-0001-7351-8706)
Vincent O'connor (ORCID:0000-0003-3185-5709)
Nils Brose (ORCID:0000-0003-0938-8534)
Lab:Department of Molecular Neurobiology, Max Planck Institute of Experimental Medicine, 37075 Göttingen, Germany
Additional literature:The paper examines the sub cellular localization of GlyT2 in rat brainstem and spinal cord tissue using immunogold labelling for electron microscopy, sub cellular fractionation and immunoisolation of synaptic membranes.
Figure 2 - subcellular fractionation of brainstem tissue. Strong GAT-1 labeling is seen in the LP2 fraction, that was further isolated on a Glycerol gradient to separate vesicles of different sizes. Labelling was seen in fractions 11 and 12, which include plasma membrane proteins and is not enriched for synaptic vesicle proteins.
Figure 3 and 4: Immunogold EM analyses of sub-fractions 4 and 8 produced by the Glycerol gradient of the LP2 fraction shows GAT-1 labeling on the membranes. @ PMID:19374720
SynGO annotation ID:764
Dataset release (version):20231201
View annotation as GO-CAM model:Gene Ontology