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Slc6a4 Gene Detail
Summary
  • Symbol
    Slc6a4
  • Name
    solute carrier family 6 (neurotransmitter transporter, serotonin), member 4
  • Synonyms
    5-HTT, Htt, Sert
  • Feature Type
    protein coding gene
  • IDs
    MGI:96285
    NCBI Gene: 15567
  • Alliance
    gene page
  • Transcription Start Sites
    3 TSS
  • Candidate for QTL
    1 QTL
Location &
Maps
more
  • Sequence Map
    Chr11:76889429-76923166 bp, + strand
    From Ensembl annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
    Ensembl | UCSC | NCBI
  • Genetic Map
    Chromosome 11, 46.18 cM
  • Mapping Data
    6 experiments
Strain
Comparison
more
  • SNPs within 2kb
    252 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
    1
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_96285
 protein coding gene Chr11:76889423-76923169 (+)
129S1/SvImJ MGP_129S1SvImJ_G0018742
 protein coding gene Chr11:77862016-77896706 (+)
A/J MGP_AJ_G0018708
 protein coding gene Chr11:74938727-74971385 (+)
AKR/J MGP_AKRJ_G0018678
 protein coding gene Chr11:77206130-77239428 (+)
BALB/cJ MGP_BALBcJ_G0018682
 protein coding gene Chr11:75319693-75354050 (+)
C3H/HeJ MGP_C3HHeJ_G0018495
 protein coding gene Chr11:77228119-77263519 (+)
C57BL/6NJ MGP_C57BL6NJ_G0019133
 protein coding gene Chr11:80313275-80351661 (+)
CAROLI/EiJ MGP_CAROLIEiJ_G0016768
 protein coding gene Chr11:71927091-71960833 (+)
CAST/EiJ MGP_CASTEiJ_G0018049
 protein coding gene Chr11:77629618-77668725 (+)
CBA/J MGP_CBAJ_G0018465
 protein coding gene Chr11:83810985-83848978 (+)
DBA/2J MGP_DBA2J_G0018574
 protein coding gene Chr11:74528227-74561884 (+)
FVB/NJ MGP_FVBNJ_G0018564
 protein coding gene Chr11:74092430-74125523 (+)
LP/J MGP_LPJ_G0018645
 protein coding gene Chr11:78465981-78501426 (+)
NOD/ShiLtJ MGP_NODShiLtJ_G0018590
 protein coding gene Chr11:84277087-84313384 (+)
NZO/HlLtJ MGP_NZOHlLtJ_G0019173
 protein coding gene Chr11:77421826-77454883 (+)
PWK/PhJ MGP_PWKPhJ_G0017820
 protein coding gene Chr11:75271622-75305950 (+)
SPRET/EiJ MGP_SPRETEiJ_G0017611
 protein coding gene Chr11:77001892-77038522 (+)
WSB/EiJ MGP_WSBEiJ_G0018102
 protein coding gene Chr11:77235619-77269366 (+)



Homology
more
  • Human Ortholog
    SLC6A4, solute carrier family 6 member 4
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    SLC6A4, solute carrier family 6 member 4
  • Synonyms
    5HTT, 5-HTT, 5-HTTLPR, hSERT, HTT, OCD1, SERT, SERT1
  • Links
    NCBI Gene ID: 6532
    neXtProt AC: NX_P31645
    UniProt: P31645

  • Chr Location
    17q11.2; chr17:30194319-30236002 (-)  GRCh38
Human Diseases
more
  • Diseases
    2 with Slc6a4 mouse models; 20 with human SLC6A4 associations

Human Disease Mouse Models
      
IDs
 View 3 models
IDs
 View 1 model
      
IDs
IDs
IDs
IDs
IDs
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IDs
IDs
IDs
IDs
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IDs
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IDs
IDs
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    3 with disease annotations
  • References
    5 with disease annotations
Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    61 phenotypes from 6 alleles in 11 genetic backgrounds
    30 phenotypes from multigenic genotypes
    265 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.
Homozygotes for a targeted null mutation exhibit greatly diminished brain serotonin levels and lack cortical barrel patterns. Also, mutants lack the locomotor enhancing response to the drug (+)-3,4-methylenedioxymethamphetamine.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
    91
  • 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
non-membrane-bounded 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
    1113
  • Tissues
    252
  • cDNA Data
    23
  • Literature Summary
    81
  • Comparison Matrix
    Gene Expression + Phenotype
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic ENSMUSG00000020838 Ensembl Gene Model | MGI Sequence Detail 33738 C57BL/6J ±  kb
    transcript ENSMUST00000108402 Ensembl | MGI Sequence Detail 2796 Not Applicable  
    polypeptide ENSMUSP00000104039 Ensembl | MGI Sequence Detail 630 Not Applicable  
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      4 Sequences
    • Protein Ontology
      PR:000015189 sodium-dependent serotonin transporter
      (term hierarchy)
    • InterPro Domains
      IPR000175 Sodium:neurotransmitter symporter
      IPR013086 Sodium:neurotransmitter symporter, serotonin, N-terminal
      IPR037272 Sodium:neurotransmitter symporter superfamily
    Molecular
    Reagents
    less
    • All nucleic 37
      Genomic 2
      cDNA 23
      Primer pair 7
      Other 5

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-11013, MGI:2144118
    References
    more
    • Summaries
      All 417
      Developmental Gene Expression 81
      Diseases 5
      Gene Ontology 17
      Phenotypes 265
    • Earliest
      J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
    • Latest
      J:343148 Jeong M, et al., Viral vector-mediated transgene delivery with novel recombinase systems for targeting neuronal populations defined by multiple features. Neuron. 2023 Oct 26;
    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
    04/16/2024
    MGI 6.23     		The Jackson Laboratory