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Slc6a13 solute carrier family 6 (neurotransmitter transporter, GABA), member 13 [ Mus musculus (house mouse) ]

Gene ID: 14412, updated on 16-Apr-2024

Summary

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Official Symbol
Slc6a13provided by MGI
Official Full Name
solute carrier family 6 (neurotransmitter transporter, GABA), member 13provided by MGI
Primary source
MGI:MGI:95629
See related
Ensembl:ENSMUSG00000030108 AllianceGenome:MGI:95629
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
GAT3; Gat2; Gabt3
Summary
Enables taurine transmembrane transporter activity. Involved in taurine transport. Located in basolateral plasma membrane. Is expressed in several structures, including alimentary system; central nervous system; eye; genitourinary system; and liver and biliary system. Orthologous to human SLC6A13 (solute carrier family 6 member 13). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in liver adult (RPKM 100.1), kidney adult (RPKM 37.3) and 9 other tissues See more
Orthologs
human all
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Genomic context

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Location:
6 F1; 6 57.22 cM
Exon count:
18
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 6 NC_000072.7 (121277247..121314680)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 6 NC_000072.6 (121300288..121337721)

Chromosome 6 - NC_000072.7Genomic Context describing neighboring genes Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:121167996-121168280 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:121176131-121176438 Neighboring gene tubulin, alpha 8 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:121193284-121193537 Neighboring gene STARR-positive B cell enhancer ABC_E4859 Neighboring gene predicted gene, 44148 Neighboring gene ubiquitin specific peptidase 18 Neighboring gene CapStarr-seq enhancer MGSCv37_chr6:121222283-121222466 Neighboring gene STARR-positive B cell enhancer ABC_E6482 Neighboring gene solute carrier family 6 (neurotransmitter transporter, betaine/GABA), member 12 Neighboring gene IQ motif and Sec7 domain 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Bibliography

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Related articles in PubMed

  1. The anticonvulsant valproate increases the turnover rate of gamma-aminobutyric acid transporters. Whitlow RD, et al. J Biol Chem, 2003 May 16. PMID 12595533
  2. Plasmalemmal and vesicular gamma-aminobutyric acid transporter expression in the developing mouse retina. Guo C, et al. J Comp Neurol, 2009 Jan 1. PMID 18975268, Free PMC Article
  3. Developmental expression of the neurotransmitter transporter GAT3. Jursky F, et al. J Neurosci Res, 1999 Feb 1. PMID 10348670
  4. Hypotaurine Is a Substrate of GABA Transporter Family Members GAT2/Slc6a13 and TAUT/Slc6a6. Nishimura T, et al. Biol Pharm Bull, 2018. PMID 30270321
  5. Embryonic and postnatal expression of four gamma-aminobutyric acid transporter mRNAs in the mouse brain and leptomeninges. Evans JE, et al. J Comp Neurol, 1996 Dec 16. PMID 8956109

See all (35) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Slc6a13 Deficiency Attenuates Pasteurella multocida Infection-Induced Inflammation via Glycine-Inflammasome Signaling.
    Title: Slc6a13 Deficiency Attenuates Pasteurella multocida Infection-Induced Inflammation via Glycine-Inflammasome Signaling.
  2. Deletion of the gamma-aminobutyric acid transporter 2 (GAT2 and SLC6A13) gene in mice leads to changes in liver and brain taurine contents.
    Title: Deletion of the γ-aminobutyric acid transporter 2 (GAT2 and SLC6A13) gene in mice leads to changes in liver and brain taurine contents.
  3. These findings demonstrate that GABA uptake and release via GAT-1, GAT-3, and VGAT are initially established in the inner retina during the first postnatal week and that these systems then mature in the outer retina during the second postnatal week.
    Title: Plasmalemmal and vesicular gamma-aminobutyric acid transporter expression in the developing mouse retina.
Submit: New GeneRIF Correction

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (4)  1 citation
  • Endonuclease-mediated (1) 

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables amino acid binding ISO
Inferred from Sequence Orthology
more info
  
enables amino acid transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables amino acid:sodium symporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables amino acid:sodium symporter activity ISO
Inferred from Sequence Orthology
more info
  
enables creatine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables gamma-aminobutyric acid transmembrane transporter 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 symporter activity IEA
Inferred from Electronic Annotation
more info
  
enables taurine transmembrane transporter activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables taurine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
  
enables taurine:sodium symporter activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables taurine:sodium symporter activity ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in amino acid import across plasma membrane ISO
Inferred from Sequence Orthology
more info
  
involved_in amino acid transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in creatine transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
involved_in gamma-aminobutyric acid import ISO
Inferred from Sequence Orthology
more info
  
involved_in monocarboxylic acid transport ISO
Inferred from Sequence Orthology
more info
  
involved_in neurotransmitter transport ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of nitrogen compound transport ISO
Inferred from Sequence Orthology
more info
  
involved_in nitrogen compound transport ISO
Inferred from Sequence Orthology
more info
  
involved_in sodium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in taurine transmembrane transport IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in taurine transmembrane transport ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in basolateral plasma membrane IDA
Inferred from Direct Assay
more info
 PubMed 
is_active_in cell projection IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  
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 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
sodium- and chloride-dependent GABA transporter 2
Names
GAT-2
GAT-3
gamma-aminobutyric acid (GABA-A) transporter 3
sodium- and chloride-dependent GABA transporter 3
solute carrier family 6 member 13

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)

  1. NM_001379107.1 → NP_001366036.1  sodium- and chloride-dependent GABA transporter 2 isoform a

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).
    Source sequence(s)
    AC153982
    UniProtKB/Swiss-Prot
    P31649
    UniProtKB/TrEMBL
    Q3UEF3
    Conserved Domains (1) summary
    cl00456
    Location:32 → 575
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain

  2. NM_001379108.1 → NP_001366037.1  sodium- and chloride-dependent GABA transporter 2 isoform b

    Status: VALIDATED

    Source sequence(s)
    AC153982
    UniProtKB/TrEMBL
    Q3UEF3
    Conserved Domains (1) summary
    cl00456
    Location:1 → 456
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain

  3. NM_001409769.1 → NP_001396698.1  sodium- and chloride-dependent GABA transporter 2 isoform c

    Status: VALIDATED

    Source sequence(s)
    AC153982

  4. NM_001409772.1 → NP_001396701.1  sodium- and chloride-dependent GABA transporter 2 isoform d

    Status: VALIDATED

    Source sequence(s)
    AC153982
    UniProtKB/TrEMBL
    Q8CF74
    Related
    ENSMUST00000142144.8

  5. NM_144512.3 → NP_653095.1  sodium- and chloride-dependent GABA transporter 2 isoform a

    See identical proteins and their annotated locations for NP_653095.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2), as well as variant 1, encodes isoform a.
    Source sequence(s)
    AC153982, AK149557, BQ176080
    Consensus CDS
    CCDS20490.1
    UniProtKB/Swiss-Prot
    P31649
    UniProtKB/TrEMBL
    Q3UEF3
    Related
    ENSMUSP00000066779.8, ENSMUST00000064580.14
    Conserved Domains (1) summary
    cl00456
    Location:32 → 575
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain

RNA

  1. NR_176894.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC153982

  2. NR_176895.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC153982

  3. NR_176896.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC153982

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000072.7 Reference GRCm39 C57BL/6J

    Range
    121277247..121314680
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006505538.4 → XP_006505601.1  sodium- and chloride-dependent GABA transporter 2 isoform X1

    UniProtKB/TrEMBL
    Q3UEF3
    Conserved Domains (1) summary
    cl00456
    Location:43 → 520
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain

  2. XM_011241211.3 → XP_011239513.1  sodium- and chloride-dependent GABA transporter 2 isoform X3

    Conserved Domains (1) summary
    cl00456
    Location:1 → 296
    SLC5-6-like_sbd; Solute carrier families 5 and 6-like; solute binding domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P31649.1 GenPept UniProtKB/Swiss-Prot:P31649

Gene LinkOut

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