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

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
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: human all
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Genomic context

Location:: 11 B5; 11 46.18 cM

Exon count:: 14

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	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)

Chromosome 11 - NC_000077.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Serotonin Transporter-dependent Histone Serotonylation in Placenta Contributes to the Neurodevelopmental Transcriptome.
Title: Serotonin Transporter-dependent Histone Serotonylation in Placenta Contributes to the Neurodevelopmental Transcriptome.
Serotonin Transporter (SERT) Expression Modulates the Composition of the Western-Diet-Induced Microbiota in Aged Female Mice.
Title: Serotonin Transporter (SERT) Expression Modulates the Composition of the Western-Diet-Induced Microbiota in Aged Female Mice.
Developing Brain Glucose Transporters, Serotonin, Serotonin Transporter, and Oxytocin Receptor Expression in Response to Early-Life Hypocaloric and Hypercaloric Dietary, and Air Pollutant Exposures.
Title: Developing Brain Glucose Transporters, Serotonin, Serotonin Transporter, and Oxytocin Receptor Expression in Response to Early-Life Hypocaloric and Hypercaloric Dietary, and Air Pollutant Exposures.
Sex and brain region-specific regulation of serotonin transporter activity in synaptosomes in guanine nucleotide-binding protein G(q) alpha knockout mice.
Title: Sex and brain region-specific regulation of serotonin transporter activity in synaptosomes in guanine nucleotide-binding protein G(q) alpha knockout mice.
Effect of serotonin transporter genotype on carbon dioxide-induced fear-related behavior in mice.
Title: Effect of serotonin transporter genotype on carbon dioxide-induced fear-related behavior in mice.
LncRNA XIST modulates 5-hydroxytrytophan-induced visceral hypersensitivity by epigenetic silencing of the SERT gene in mice with diarrhea-predominant IBS.
Title: LncRNA XIST modulates 5-hydroxytrytophan-induced visceral hypersensitivity by epigenetic silencing of the SERT gene in mice with diarrhea-predominant IBS.
Involvement of PKCbetaI-SERT activity in stress vulnerability of mice exposed to twice-swim stress.
Title: Involvement of PKCβI-SERT activity in stress vulnerability of mice exposed to twice-swim stress.
Serotonin transporter genotype modulates resting state and predator stress-induced amygdala perfusion in mice in a sex-dependent manner.
Title: Serotonin transporter genotype modulates resting state and predator stress-induced amygdala perfusion in mice in a sex-dependent manner.
Female serotonin transporter-knockout rat: A potential model of irritable bowel syndrome.
Title: Female serotonin transporter-knockout rat: A potential model of irritable bowel syndrome.
Disruption of Transient SERT Expression in Thalamic Glutamatergic Neurons Alters Trajectory of Postnatal Interneuron Development in the Mouse Cortex.
Title: Disruption of Transient SERT Expression in Thalamic Glutamatergic Neurons Alters Trajectory of Postnatal Interneuron Development in the Mouse Cortex.

Submit: New GeneRIF Correction See all GeneRIFs (160)

Variation

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Alleles

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

Gene trapped (2) 1 citation
Targeted (12) 1 citation
Endonuclease-mediated (9) 1 citation

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Slc6a4 (e-PCR), detects polymorphism
- UniSTS:547357

AI323329 (e-PCR)
- UniSTS:180256

Slc6a4 (e-PCR), detects polymorphism
- UniSTS:143433

AF013604 (e-PCR)
- UniSTS:160124

Slc6a4 (e-PCR), detects polymorphism
- UniSTS:516847

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables actin filament binding	ISO Inferred from Sequence Orthology more info
enables antiporter activity	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 integrin 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 monoatomic cation channel activity	ISO Inferred from Sequence Orthology more info
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
enables serotonin binding	ISO Inferred from Sequence Orthology more info
enables serotonin:sodium:chloride symporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables serotonin:sodium:chloride symporter activity	IDA Inferred from Direct Assay more info	PubMed
enables serotonin:sodium:chloride symporter activity	ISO Inferred from Sequence Orthology more info
enables sodium ion binding	ISO Inferred from Sequence Orthology more info
enables syntaxin-1 binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in amino acid transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in behavioral response to cocaine	ISO Inferred from Sequence Orthology more info
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 conditioned place preference	ISO Inferred from Sequence Orthology more info
involved_in enteric nervous system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in membrane depolarization	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	IDA Inferred from Direct Assay more info	PubMed
involved_in neurotransmitter reuptake	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in neurotransmitter reuptake	NAS Non-traceable Author Statement more info	PubMed
involved_in neurotransmitter transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in platelet aggregation	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
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
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 anchoring junction	IEA Inferred from Electronic Annotation more info
located_in cell projection	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 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
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
located_in presynapse	NAS Non-traceable Author Statement more info	PubMed
is_active_in presynaptic membrane	ISO Inferred from Sequence Orthology more info
is_active_in serotonergic synapse	ISO Inferred from Sequence Orthology more info
is_active_in synapse	IBA Inferred from Biological aspect of Ancestor more info
located_in synapse	IDA Inferred from Direct Assay more info	PubMed

General protein information

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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)

NM_010484.2 → NP_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

O35241, Q5NCR6, Q60857

UniProtKB/TrEMBL

Q32MU4

Related

ENSMUSP00000021195.5, ENSMUST00000021195.11

Conserved Domains (2) summary

cd11513
Location:79 → 615

SLC6sbd_SERT; Na(+)- and Cl(-)-dependent serotonin transporter SERT; solute-binding domain

pfam03491
Location:24 → 64

5HT_transport_N; Serotonin (5-HT) neurotransmitter transporter, N-terminus