Slc6a11 solute carrier family 6 member 11 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Slc6a11provided by RGD
Official Full Name: solute carrier family 6 member 11provided by RGD
Primary source: RGD:628737
See related: Ensembl:ENSRNOG00000005697 AllianceGenome:RGD:628737
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Gat3; Gabt4
Summary: Enables gamma-aminobutyric acid:sodium symporter activity and neurotransmitter binding activity. Involved in brain development; neurotransmitter reuptake; and response to xenobiotic stimulus. Located in cell projection; cytoplasm; and membrane. Is active in GABA-ergic synapse. Is integral component of postsynaptic membrane and integral component of presynaptic membrane. Biomarker of visual epilepsy. Orthologous to human SLC6A11 (solute carrier family 6 member 11). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Restricted expression toward (RPKM 112.9) See more
Orthologs: human mouse all
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Genomic context

Location:: 4q42

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (148853557..148968895)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (147297972..147413319)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (146106386..146223228)

Chromosome 4 - NC_086022.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

glial GAT-3 transporters are downregulated while neuronal GAT-1 function remains normal in dopamine-depleted rodents.
Title: GAT-3 Dysfunction Generates Tonic Inhibition in External Globus Pallidus Neurons in Parkinsonian Rodents.
Increases in GAT-3 activity result in astrocytic Na+ accumulation and a consequent increase in astrocytic Ca2+ through Na+/Ca2+ exchange, leading to the astrocytic release of ATP/adenosine.
Title: Astrocytic GABA transporter activity modulates excitatory neurotransmission.
Expression of the gamma-aminobutyric acid (GABA) transporter GAT-3 was selectively decreased within the amygdala of alcohol-choosing rats, whereas a knockdown of this transcript reversed choice preference of rats that originally chose a sweet solution over alcohol.
Title: A molecular mechanism for choosing alcohol over an alternative reward.
Study provides a quantitative analysis of the subcellular distribution of GAT-1 and GAT-3 in cerebral cortex, and a detailed description of their ultrastructural localization at GABAergic synapses.
Title: A quantitative analysis of cellular and synaptic localization of GAT-1 and GAT-3 in rat neocortex.
Gat-3 acts synergistically with Gat-1 in the immature hippocampus to regulate excitability.
Title: Inhibition of different GABA transporter systems is required to attenuate epileptiform activity in the CA3 region of the immature rat hippocampus.
Astrocytic GAT-3 contributes to the regulation of extracellular GABA in the hippocampus in vivo and may play an important role in controlling the excitability of hippocampal cells when network activity is increased.
Title: A functional role for both -aminobutyric acid (GABA) transporter-1 and GABA transporter-3 in the modulation of extracellular GABA and GABAergic tonic conductances in the rat hippocampus.
This study provides evidence that the GAT-3-mediated regulation of extracellular GABA can modulate glutamatergic transmission at the subthalamopallidal synapse in the rat globus pallidus.
Title: GABA transporter subtype 1 and GABA transporter subtype 3 modulate glutamatergic transmission via activation of presynaptic GABA(B) receptors in the rat globus pallidus.
Data indicate that GAT-1 and GAT-3 represent different target sites through which GABA reuptake may subserve complementary regulation of GABAergic transmission in the rat globus pallidus.
Title: Differential localization and function of GABA transporters, GAT-1 and GAT-3, in the rat globus pallidus.
Excessive expression of GAT-1 as well as GAT-3 and GABA receptor alpha1 subunits in hippocampal tremor may provide the potential therapeutic targets for genetic epilepsy.
Title: Up-regulation of GABA transporters and GABA(A) receptor α1 subunit in tremor rat hippocampus.
We found a significant downregulation of the GABA transporter GAT3 in congenital learned helplessness rats.
Title: Reduced expression of GABA transporter GAT3 in helpless rats, an animal model of depression.

Submit: New GeneRIF Correction See all GeneRIFs (13)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Slc6a11 (e-PCR), detects polymorphism
- UniSTS:525659

Slc6a11 (e-PCR), detects polymorphism
- UniSTS:495998

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables amino acid binding	IDA Inferred from Direct Assay more info	PubMed
enables amino acid:sodium symporter activity	ISO Inferred from Sequence Orthology more info
enables gamma-aminobutyric acid:sodium:chloride symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables gamma-aminobutyric acid:sodium:chloride symporter activity	IDA Inferred from Direct Assay more info	PubMed
enables gamma-aminobutyric acid:sodium:chloride symporter activity	ISO Inferred from Sequence Orthology more info
enables monocarboxylic acid transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables taurine:sodium symporter activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in amino acid transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in amino acid transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in gamma-aminobutyric acid transport	IEA Inferred from Electronic Annotation more info
involved_in monocarboxylic acid transport	ISO Inferred from Sequence Orthology more info
involved_in neurotransmitter transport	IDA Inferred from Direct Assay more info	PubMed
involved_in neurotransmitter uptake	ISO Inferred from Sequence Orthology more info
involved_in response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in sodium ion transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in taurine transmembrane transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
is_active_in GABA-ergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in cell projection	IBA Inferred from Biological aspect of Ancestor more info
located_in cell projection	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in presynaptic membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in synapse	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: sodium- and chloride-dependent GABA transporter 3

Names: GABA transporter GAT-3; GAT-3; solute carrier family 6 (neurotransmitter transporter), member 11; solute carrier family 6 (neurotransmitter transporter, GABA), member 11

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_024372.2 → NP_077348.1 sodium- and chloride-dependent GABA transporter 3

See identical proteins and their annotated locations for NP_077348.1

Status: PROVISIONAL

Source sequence(s)

M95763

UniProtKB/Swiss-Prot

P31647

UniProtKB/TrEMBL

A6IBU5

Related

ENSRNOP00000008342.3, ENSRNOT00000008342.6

Conserved Domains (1) summary

cd11508
Location:44 → 585

SLC6sbd_GAT3; Na(+)- and Cl(-)-dependent GABA transporter 3; solute-binding domain