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    Slc6a4 solute carrier family 6 member 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 25553, updated on 4-Jan-2025

    Summary

    Official Symbol
    Slc6a4provided by RGD
    Official Full Name
    solute carrier family 6 member 4provided by RGD
    Primary source
    RGD:3714
    See related
    EnsemblRapid:ENSRNOG00000003476 AllianceGenome:RGD:3714
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    SERT
    Summary
    Enables several functions, including cocaine binding activity; monoatomic cation transmembrane transporter activity; and syntaxin-1 binding activity. Involved in several processes, including behavioral response to cocaine; cellular response to cGMP; and learning or memory. Located in endomembrane system and plasma membrane. Is active in postsynaptic membrane; presynaptic membrane; and serotonergic synapse. Used to study anxiety disorder; depressive disorder; and pulmonary hypertension. Biomarker of Parkinsonism; borna disease; congenital diaphragmatic hernia; and fetal alcohol spectrum disorder. Human ortholog(s) of this gene implicated in several diseases, including alcohol dependence; anxiety disorder (multiple); depressive disorder (multiple); heart disease (multiple); and substance abuse (multiple). Orthologous to human SLC6A4 (solute carrier family 6 member 4). [provided by Alliance of Genome Resources, Jan 2025]
    Expression
    Biased expression in Lung (RPKM 107.1), Adrenal (RPKM 71.6) and 4 other tissues See more
    Orthologs
    NEW
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    Genomic context

    See Slc6a4 in Genome Data Viewer
    Location:
    10q24
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 10 NC_086028.1 (62322688..62357060)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 10 NC_051345.1 (61824208..61858924)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (63153656..63188377, complement)

    Chromosome 10 - NC_086028.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120095329 Neighboring gene bleomycin hydrolase Neighboring gene uncharacterized LOC134480827 Neighboring gene nuclear speckle splicing regulatory protein 1 Neighboring gene microRNA 423 Neighboring gene EF-hand calcium binding domain 5

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin filament binding PubMed 
    enables antiporter activity  
    enables cocaine binding PubMed 
    enables identical protein binding PubMed 
    enables integrin binding  
    enables integrin binding  
    enables monoamine transmembrane transporter activity  
    enables monoatomic cation channel activity PubMed 
    enables neurotransmitter transmembrane transporter activity  
    enables nitric-oxide synthase binding  
    enables protein binding PubMed 
    enables serotonin binding  
    enables serotonin binding  
    enables serotonin binding  
    enables serotonin:sodium:chloride symporter activity  
    enables serotonin:sodium:chloride symporter activity PubMed 
    enables serotonin:sodium:chloride symporter activity PubMed 
    enables serotonin:sodium:chloride symporter activity  
    enables serotonin:sodium:chloride symporter activity PubMed 
    enables sodium ion binding  
    enables sodium ion binding  
    enables syntaxin-1 binding PubMed 
    Items 1 - 25 of 40
    Process Evidence Code Pubs
    involved_in amino acid transport  
    involved_in behavioral response to cocaine PubMed 
    involved_in brain morphogenesis  
    involved_in cellular response to cGMP PubMed 
    involved_in cellular response to retinoic acid PubMed 
    involved_in circadian rhythm PubMed 
    involved_in conditioned place preference PubMed 
    involved_in enteric nervous system development  
    involved_in locomotory behavior PubMed 
    involved_in male mating behavior PubMed 
    involved_in membrane depolarization PubMed 
    involved_in memory PubMed 
    acts_upstream_of_or_within monoamine transport  
    involved_in negative regulation of cerebellar granule cell precursor proliferation PubMed 
    involved_in negative regulation of neuron differentiation PubMed 
    involved_in negative regulation of organ growth  
    involved_in negative regulation of synaptic transmission, dopaminergic PubMed 
    involved_in neurotransmitter reuptake  
    involved_in neurotransmitter transport  
    involved_in platelet aggregation  
    involved_in platelet aggregation  
    involved_in positive regulation of cell cycle  
    involved_in positive regulation of gene expression  
    involved_in positive regulation of serotonin secretion PubMed 
    involved_in regulation of thalamus size  
    involved_in regulation of thalamus size  
    involved_in response to estradiol PubMed 
    involved_in response to hypoxia PubMed 
    involved_in response to nutrient PubMed 
    involved_in response to toxic substance  
    involved_in response to xenobiotic stimulus PubMed 
    involved_in serotonin transport PubMed 
    involved_in serotonin transport PubMed 
    involved_in serotonin transport  
    involved_in serotonin transport PubMed 
    involved_in serotonin uptake  
    involved_in serotonin uptake PubMed 
    involved_in serotonin uptake  
    involved_in sodium ion transmembrane transport  
    involved_in vasoconstriction PubMed 
    Items 1 - 25 of 40
    Component Evidence Code Pubs
    located_in endomembrane system PubMed 
    located_in endomembrane system  
    located_in endomembrane system PubMed 
    located_in endosome membrane  
    located_in focal adhesion  
    located_in focal adhesion  
    located_in membrane raft  
    is_active_in neuron projection  
    is_active_in plasma membrane  
    located_in plasma membrane PubMed 
    located_in plasma membrane  
    is_active_in postsynaptic membrane PubMed 
    is_active_in presynaptic membrane PubMed 
    is_active_in serotonergic synapse PubMed 
    is_active_in synapse  
    located_in synapse  
    located_in synapse  

    General protein information

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

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_013034.4NP_037166.2  sodium-dependent serotonin transporter

      Status: VALIDATED

      Source sequence(s)
      AI547408, BF548147, CB736426, JAXUCZ010000010, M79450
      UniProtKB/Swiss-Prot
      P23976, P31652
      UniProtKB/TrEMBL
      A6HGX0
      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: GCF_036323735.1-RS_2024_02

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

    Reference GRCr8

    Genomic

    1. NC_086028.1 Reference GRCr8

      Range
      62322688..62357060
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017597042.3XP_017452531.1  sodium-dependent serotonin transporter isoform X1

      UniProtKB/Swiss-Prot
      P23976, P31652
      UniProtKB/TrEMBL
      A6HGX0
      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
    2. XM_008767950.4XP_008766172.1  sodium-dependent serotonin transporter isoform X1

      UniProtKB/Swiss-Prot
      P23976, P31652
      UniProtKB/TrEMBL
      A6HGX0
      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
    3. XM_017597041.3XP_017452530.1  sodium-dependent serotonin transporter isoform X1

      UniProtKB/Swiss-Prot
      P23976, P31652
      UniProtKB/TrEMBL
      A6HGX0
      Related
      ENSRNOP00000004717.4, ENSRNOT00000004717.8
      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
    4. XM_039085288.2XP_038941216.1  sodium-dependent serotonin transporter isoform X1

      UniProtKB/Swiss-Prot
      P23976, P31652
      UniProtKB/TrEMBL
      A6HGX0
      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
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