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Slc6a4 solute carrier family 6 (neurotransmitter transporter, serotonin), member 4 [ Mus musculus (house mouse) ]

Gene ID: 15567, updated on 15-Jun-2022

Summary

Official Symbol
Slc6a4provided by MGI
Official Full Name
solute carrier family 6 (neurotransmitter transporter, serotonin), member 4provided by MGI
Primary source
MGI:MGI:96285
See related
Ensembl:ENSMUSG00000020838 AllianceGenome:MGI:96285
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
Htt; Sert; 5-HTT; AI323329
Summary
Enables monoamine transmembrane transporter activity; neurotransmitter transmembrane transporter activity; and nitric-oxide synthase binding activity. Involved in several processes, including brain morphogenesis; serotonin uptake; and social behavior. Acts upstream of or within cellular response to organic substance. Located in focal adhesion and synapse. Is expressed in several structures, including early conceptus; liver; nervous system; ovary; and polar body. Used to study autism spectrum disorder and sudden infant death syndrome. Human ortholog(s) of this gene implicated in several diseases, including alcohol use disorder; alexithymia; anxiety disorder (multiple); heart disease (multiple); and mental depression (multiple). Orthologous to human SLC6A4 (solute carrier family 6 member 4). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Broad expression in large intestine adult (RPKM 24.9), small intestine adult (RPKM 15.4) and 16 other tissues See more
Orthologs
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Genomic context

See Slc6a4 in Genome Data Viewer
Location:
11 B5; 11 46.18 cM
Exon count:
14
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 11 NC_000077.7 (76889423..76923169)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 11 NC_000077.6 (76998597..77032343)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 11 NC_000077.5 (76812099..76845845)

Chromosome 11 - NC_000077.7Genomic Context describing neighboring genes Neighboring gene transmembrane and immunoglobulin domain containing 1 Neighboring gene bleomycin hydrolase Neighboring gene solute carrier family 6 member 4 gene promoter Neighboring gene predicted gene 12343 Neighboring gene nuclear speckle regulatory protein 1 Neighboring gene predicted gene, 22772 Neighboring gene microRNA 423

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • MGC124313, MGC124314

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables actin filament binding ISO
Inferred from Sequence Orthology
more info
 
enables cocaine binding ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables monoamine transmembrane transporter activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables monoamine transmembrane transporter activity ISO
Inferred from Sequence Orthology
more info
PubMed 
enables neurotransmitter transmembrane transporter activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
enables nitric-oxide synthase binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables serotonin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables serotonin:sodium symporter activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables serotonin:sodium symporter activity ISO
Inferred from Sequence Orthology
more info
 
enables symporter activity IEA
Inferred from Electronic Annotation
more info
 
enables syntaxin-1 binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in brain morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in cellular response to cGMP ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cellular response to organic substance IDA
Inferred from Direct Assay
more info
PubMed 
involved_in circadian rhythm ISO
Inferred from Sequence Orthology
more info
 
involved_in memory ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within monoamine transport ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in negative regulation of cerebellar granule cell precursor proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of neuron differentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of organ growth IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in negative regulation of synaptic transmission, dopaminergic ISO
Inferred from Sequence Orthology
more info
 
involved_in neurotransmitter reuptake IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in neurotransmitter transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of cell cycle IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of serotonin secretion ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of thalamus size ISO
Inferred from Sequence Orthology
more info
 
involved_in response to toxic substance ISO
Inferred from Sequence Orthology
more info
 
involved_in serotonin transport IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in serotonin transport ISO
Inferred from Sequence Orthology
more info
 
involved_in serotonin uptake IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in serotonin uptake IDA
Inferred from Direct Assay
more info
PubMed 
involved_in serotonin uptake IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in serotonin uptake ISO
Inferred from Sequence Orthology
more info
 
involved_in social behavior IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in sodium ion transmembrane transport IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in sperm ejaculation ISO
Inferred from Sequence Orthology
more info
 
involved_in vasoconstriction ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
located_in cell junction IEA
Inferred from Electronic Annotation
more info
 
located_in endomembrane system ISO
Inferred from Sequence Orthology
more info
 
located_in endosome IEA
Inferred from Electronic Annotation
more info
 
located_in focal adhesion IDA
Inferred from Direct Assay
more info
PubMed 
located_in integral component of membrane IEA
Inferred from Electronic Annotation
more info
 
is_active_in integral component of plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
is_active_in integral component of postsynaptic membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in integral component of presynaptic membrane ISO
Inferred from Sequence Orthology
more info
 
located_in membrane IEA
Inferred from Electronic Annotation
more info
 
located_in membrane raft ISO
Inferred from Sequence Orthology
more info
 
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in neuron projection ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
is_active_in serotonergic synapse ISO
Inferred from Sequence Orthology
more info
 
located_in synapse IDA
Inferred from Direct Assay
more info
PubMed 
located_in synapse ISO
Inferred from Sequence Orthology
more info
 

General protein information

Preferred Names
sodium-dependent serotonin transporter
Names
5-hydroxytryptamine (serotonin) transporter
5HT transporter
5HTT
Sodium-dependent serotonin transporter (5HT transporter) (5HTT)
solute carrier family 6 member 4

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_010484.2NP_034614.2  sodium-dependent serotonin transporter

    See identical proteins and their annotated locations for NP_034614.2

    Status: VALIDATED

    Source sequence(s)
    AL603842
    Consensus CDS
    CCDS25074.1
    UniProtKB/Swiss-Prot
    Q60857
    Related
    ENSMUSP00000021195.5, ENSMUST00000021195.11
    Conserved Domains (2) summary
    cd11513
    Location:79615
    SLC6sbd_SERT; Na(+)- and Cl(-)-dependent serotonin transporter SERT; solute-binding domain
    pfam03491
    Location:2464
    5HT_transport_N; Serotonin (5-HT) neurotransmitter transporter, N-terminus

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000077.7 Reference GRCm39 C57BL/6J

    Range
    76889423..76923169
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)