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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
  • Gene Overview
    MyGene.info: SLC6A4
  • Alliance
  • Transcription Start Sites
    3 TSS
Location &
Maps
more
  • Sequence Map
    Chr11:76998603-77032340 bp, + strand
  • From Ensembl annotation of GRCm38

    View this region in JBrowse

  • Genome Browsers
  • 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
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_96285
protein coding gene Chr11:76998466-77032345 (.)
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
    10
  • Human Ortholog
    SLC6A4, solute carrier family 6 member 4
    Orthology source: HomoloGene, HGNC
  • 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; chr17:30194319-30235968 (-)  GRCh38.p7

  • HomoloGene
    Vertebrate Homology Class 817
    1 human;1 mouse;1 rat;1 chimpanzee;1 cattle;1 dog;1 chicken;1 zebrafish;1 frog, western clawed;1 macaque, rhesus
  • HCOP
    human homology predictions: SLC6A4
  • Gene Tree
Human Diseases
more
  • Diseases
    2 with Slc6a4 mouse models

Human Disease Mouse Models
      
IDs
View 2 models
IDs
View 1 model
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    3 with disease annotations
  • References
    4 with disease annotations
Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    38 phenotypes from 8 alleles in 11 genetic backgrounds
    34 phenotypes from multigenic genotypes
    172 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
immune system
integument
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
neoplasm
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
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
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  • All GO Annotations
  • GO References
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 death
cell differentiation
cell proliferation
cellular component organization
establishment of localization
homeostatic process
immune system process
lipid metabolic process
nucleic acid-templated transcription
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
synapse
vacuole
Click cells to view annotations.
Expression
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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
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
  • Interactions
    less
    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
    • InterPro Domains
      IPR000175 Sodium:neurotransmitter symporter
      IPR013086 Sodium:neurotransmitter symporter, serotonin, N-terminal
      IPR037272 Sodium:neurotransmitter symporter superfamily
    Molecular
    Reagents
    less
    • All nucleic 29
      Genomic 2
      cDNA 22
      Primer pair 3
      Other 2

      Microarray probesets 3
    Other
    Accession IDs
    less
    MGD-MRK-11013, MGI:2144118
    References
    more
    • Summaries
      All 294
      Developmental Gene Expression 63
      Diseases 4
      Gene Ontology 13
      Phenotypes 172
    • Earliest
      J:137335 Roderick TH, Chromosomal inversions in studies of mammalian mutagenesis. Genetics. 1979 May;92(1 Pt 1 Suppl):s121-6
    • Latest
      J:264182 Shehabeldin R, et al., Reelin controls the positioning of brainstem serotonergic raphe neurons. PLoS One. 2018;13(7):e0200268

    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Tumor Biology (MTB), Gene Ontology (GO), MouseCyc
    Citing These Resources
    Funding Information
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    last database update
    11/06/2018
    MGI 6.13
    The Jackson Laboratory