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

    Gene ID: 14412, updated on 27-Nov-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 gamma-aminobutyric acid:sodium:chloride symporter activity and taurine:sodium symporter activity. Involved in taurine transmembrane 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, Nov 2024]
    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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    See Slc6a13 in Genome Data Viewer
    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. Slc6a13 Deficiency Attenuates Pasteurella multocida Infection-Induced Inflammation via Glycine-Inflammasome Signaling. He F, et al. J Innate Immun, 2023. PMID 35797984, Free PMC Article
    2. The anticonvulsant valproate increases the turnover rate of gamma-aminobutyric acid transporters. Whitlow RD, et al. J Biol Chem, 2003 May 16. PMID 12595533
    3. Developmental expression of the neurotransmitter transporter GAT3. Jursky F, et al. J Neurosci Res, 1999 Feb 1. PMID 10348670
    4. 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
    5. Hypotaurine Is a Substrate of GABA Transporter Family Members GAT2/Slc6a13 and TAUT/Slc6a6. Nishimura T, et al. Biol Pharm Bull, 2018. PMID 30270321

    See all (39) 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)
    • Endonuclease-mediated (1) 
    • Targeted (4)  1 citation

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables amino acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 IEA
    Inferred from Electronic Annotation
    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 taurine transmembrane transporter activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in creatine transmembrane transport ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in gamma-aminobutyric acid import IEA
    Inferred from Electronic Annotation
    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 IEA
    Inferred from Electronic Annotation
    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 sodium ion transmembrane transport IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in sodium ion transmembrane transport IEA
    Inferred from Electronic Annotation
    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
    		  
    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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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