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Slc6a1 Gene Detail
Summary
  • Symbol
    Slc6a1
  • Name
    solute carrier family 6 (neurotransmitter transporter, GABA), member 1
  • Synonyms
    Gabt, Gabt1, Gat1, GAT-1, XT-1, Xtrp1
  • Feature Type
    protein coding gene
  • IDs
    MGI:95627
    NCBI Gene: 232333
  • Alliance
    genome feature page
  • Transcription Start Sites
    12 TSS
Location &
Maps
more
  • Sequence Map
    Chr6:114259735-114294491 bp, + strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 6, 53.05 cM, cytoband E3
  • Mapping Data
    4 experiments
Strain
Comparison
more
  • SNPs within 2kb
    1012 from dbSNP Build 142
  • Strain Annotations
    19
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_95627
 protein coding gene Chr6:114259596-114294493 (+)
129S1/SvImJ ENSMUSG00200023906
 protein coding gene Chr6:111308630-111343510 (+)
A/J ENSMUSG00195016204
 protein coding gene Chr6:110982044-111016943 (+)
AKR/J ENSMUSG00220031265
 protein coding gene Chr6:109913156-109948059 (+)
BALB/cJ ENSMUSG00180002110
 protein coding gene Chr6:111346756-111381654 (+)
C3H/HeJ ENSMUSG00175033420
 protein coding gene Chr6:66019088-66053986 (-)
C57BL/6NJ ENSMUSG00215016458
 protein coding gene Chr6:111341180-111376077 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0028743
 protein coding gene Chr6:109393641-109428107 (+)
CAST/EiJ ENSTCUG00005026367
 protein coding gene Chr6:111152518-111186535 (+)
CBA/J ENSMUSG00210020244
 protein coding gene Chr6:111173005-111207909 (+)
DBA/2J ENSMUSG00185042356
 protein coding gene Chr6:111544566-111579449 (+)
FVB/NJ ENSMUSG00205014921
 protein coding gene Chr6:110241565-110276458 (+)
JF1/MsJ ENSUMUG00000017059
 protein coding gene Chr6:110275183-110310094 (+)
LP/J ENSMUSG00230039739
 protein coding gene Chr6:112809910-112844791 (+)
NOD/ShiLtJ ENSMUSG00190016351
 protein coding gene Chr6:110746152-110781035 (+)
NZO/HlLtJ ENSMUSG00225045261
 protein coding gene Chr6:114758769-114793652 (+)
PWK/PhJ ENSLUMG00010025857
 protein coding gene Chr6:109769129-109804045 (+)
SPRET/EiJ ENSMSPG00010035596
 protein coding gene Chr6:112538852-112573404 (+)
WSB/EiJ ENSIUOG00005022713
 protein coding gene Chr6:111494310-111529186 (+)



Homology
more
  • Human Ortholog
    SLC6A1, solute carrier family 6 member 1
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SLC6A1, solute carrier family 6 member 1
  • Synonyms
    GABATHG, GABATR, GAT1, hGAT-1, MAE
  • Links
    NCBI Gene ID: 6529
    UniProt: P30531

  • Chr Location
    3p25.3; chr3:10992186-11039247 (+)  GRCh38
Human Diseases
more
  • Diseases
    1 with Slc6a1 mouse models; 2 with human SLC6A1 associations

Human Disease Mouse Models
      
IDs
 View 1 model
      
IDs
IDs
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    1 with disease annotations
  • References
    1 with disease annotations
Mutations,
Alleles, and
Phenotypes
less
  • Phenotype Summary
    30 phenotypes from 3 alleles in 3 genetic backgrounds
    36 phenotype references
Phenotype Overview

adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Homozygous hypomorphic mice display abnormal inhibitory postsynaptic currents, and abnormal GABA uptake and release. Null mice show hyperactivity and various behavioral abnormalities, as well as an aversion to bitter taste.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    56
  • GO References
    17
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
less
Expression Overview

early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
    1143
  • Tissues
    241
  • cDNA Data
    72
  • Literature Summary
    28
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 232333 NCBI Gene Model | MGI Sequence Detail 34757 C57BL/6J ±  kb
    transcript NM_178703 RefSeq | MGI Sequence Detail 4144 C57BL/6  
    polypeptide P31648 UniProt | EBI | MGI Sequence Detail 599 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      4 Sequences
    • Protein Ontology
      PR:000015176 sodium- and chloride-dependent GABA transporter 1
      (term hierarchy)
    • InterPro Domains
      IPR000175 Sodium:neurotransmitter symporter
      IPR002980 Sodium:neurotransmitter symporter, GABA, GAT-1
      IPR037272 Sodium:neurotransmitter symporter superfamily
    • GlyGen
      P31648 4 sites, 1 O-linked glycan (1 site)
    Molecular
    Reagents
    less
    • All nucleic 86
      Genomic 2
      cDNA 76
      Primer pair 6
      Other 2
      Antibodies 4

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-19419, MGD-MRK-9946, MGD-MRK-9947
    References
    more
    • Summaries
      All 128
      Developmental Gene Expression 28
      Diseases 1
      Gene Ontology 17
      Phenotypes 36
    • Earliest
      J:1492 Liu QR, et al., A family of genes encoding neurotransmitter transporters. Proc Natl Acad Sci U S A. 1992 Jul 15;89(14):6639-43
    • Latest
      J:390063 Randhave K, et al., 4-Phenylbutyrate rescues neurobehavioral phenotypes in SLC6A1-related encephalopathy. Epilepsy Res. 2026 Feb;220:107708
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
    Citing These Resources
    Funding Information
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    Send questions and comments to User Support.     		last database update
    09/01/2026
    MGI 6.24     		The Jackson Laboratory