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

    Gene ID: 25553, updated on 2-Oct-2018

    Summary

    Official Symbol
    Slc6a4provided by RGD
    Official Full Name
    solute carrier family 6 member 4provided by RGD
    Primary source
    RGD:3714
    See related
    Ensembl:ENSRNOG00000003476
    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
    binds serotonin; may play a role in regulation of motor activity [RGD, Feb 2006]
    Annotation information
    Annotation category: suggests misassembly
    Expression
    Biased expression in Lung (RPKM 107.1), Adrenal (RPKM 71.6) and 4 other tissues See more
    Orthologs

    Genomic context

    See Slc6a4 in Genome Data Viewer
    Location:
    10q24
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    106 current Rnor_6.0 (GCF_000001895.5) 10 NC_005109.4 (63153656..63188377, complement)
    104 previous assembly Rnor_5.0 (GCF_000001895.4) 10 NC_005109.3 (62851326..62872481, complement)

    Chromosome 10 - NC_005109.4Genomic Context describing neighboring genes Neighboring gene EF-hand calcium binding domain 5 Neighboring gene microRNA 423 Neighboring gene nuclear speckle splicing regulatory protein 1 Neighboring gene bleomycin hydrolase Neighboring gene transmembrane and immunoglobulin domain containing 1

    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 FunctionsWhat's a GeneRIF?

    Pathways from BioSystems

    General gene information

    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    Rab GTPase binding IEA
    Inferred from Electronic Annotation
    more info
     
    Rab GTPase binding ISO
    Inferred from Sequence Orthology
    more info
     
    actin filament binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cocaine binding IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    metal ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    monoamine transmembrane transporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    myosin binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    nitric-oxide synthase binding IEA
    Inferred from Electronic Annotation
    more info
     
    nitric-oxide synthase binding ISO
    Inferred from Sequence Orthology
    more info
     
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein homodimerization activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    serotonin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    serotonin:sodium symporter activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    serotonin:sodium symporter activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    serotonin:sodium symporter activity IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    serotonin:sodium symporter activity ISO
    Inferred from Sequence Orthology
    more info
     
    serotonin:sodium symporter activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    serotonin:sodium symporter activity TAS
    Traceable Author Statement
    more info
    PubMed 
    syntaxin-1 binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    brain development IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    brain morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    brain morphogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to cGMP IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cellular response to organic substance ISO
    Inferred from Sequence Orthology
    more info
     
    cellular response to retinoic acid IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    circadian rhythm IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    locomotory behavior NAS
    Non-traceable Author Statement
    more info
    PubMed 
    memory IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    monoamine transport ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of cerebellar granule cell precursor proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of neuron differentiation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    negative regulation of organ growth IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of organ growth ISO
    Inferred from Sequence Orthology
    more info
     
    negative regulation of synaptic transmission, dopaminergic IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    neurotransmitter reuptake ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of cell cycle IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cell cycle ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of gene expression IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of gene expression ISO
    Inferred from Sequence Orthology
    more info
     
    positive regulation of serotonin secretion IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    protein complex oligomerization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    protein homooligomerization IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of thalamus size ISO
    Inferred from Sequence Orthology
    more info
     
    regulation of thalamus size ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    response to drug IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to estradiol IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to hypoxia IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to nutrient IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to organic substance IEP
    Inferred from Expression Pattern
    more info
    PubMed 
    response to toxic substance IEA
    Inferred from Electronic Annotation
    more info
     
    response to toxic substance ISO
    Inferred from Sequence Orthology
    more info
     
    serotonin transport IDA
    Inferred from Direct Assay
    more info
    PubMed 
    serotonin transport IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    serotonin transport ISO
    Inferred from Sequence Orthology
    more info
     
    serotonin transport TAS
    Traceable Author Statement
    more info
    PubMed 
    serotonin uptake IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    serotonin uptake IDA
    Inferred from Direct Assay
    more info
    PubMed 
    serotonin uptake IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    serotonin uptake ISO
    Inferred from Sequence Orthology
    more info
     
    social behavior IEA
    Inferred from Electronic Annotation
    more info
     
    social behavior ISO
    Inferred from Sequence Orthology
    more info
     
    sperm ejaculation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    transmembrane transport IEA
    Inferred from Electronic Annotation
    more info
     
    vasoconstriction IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    Component Evidence Code Pubs
    cytosol IEA
    Inferred from Electronic Annotation
    more info
     
    cytosol ISO
    Inferred from Sequence Orthology
    more info
     
    endomembrane system IDA
    Inferred from Direct Assay
    more info
    PubMed 
    endomembrane system ISO
    Inferred from Sequence Orthology
    more info
     
    endomembrane system NAS
    Non-traceable Author Statement
    more info
    PubMed 
    endosome membrane IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of postsynaptic membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    integral component of presynaptic membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    membrane raft IDA
    Inferred from Direct Assay
    more info
    PubMed 
    membrane raft ISO
    Inferred from Sequence Orthology
    more info
     
    neuron projection IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    neuron projection IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane ISO
    Inferred from Sequence Orthology
    more info
     
    serotonergic synapse IDA
    Inferred from Direct Assay
    more info
    PubMed 

    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 serotonin) member 4 (5-hydroxytryptamine (serotonin) transporter)
    solute carrier family 6 (neurotransmitter transporter), member 4
    solute carrier family 6 (neurotransmitter transporter, serotonin), member 4

    NCBI Reference Sequences (RefSeq)

    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

      See identical proteins and their annotated locations for NP_037166.2

      Status: VALIDATED

      Source sequence(s)
      AC128611, AI547408, BF548147, CB736426, M79450
      UniProtKB/Swiss-Prot
      P31652
      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: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

    Reference Rnor_6.0 Primary Assembly

    Genomic

    1. NC_005109.4 Reference Rnor_6.0 Primary Assembly

      Range
      63153656..63188377 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

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

      UniProtKB/Swiss-Prot
      P31652
      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_008767950.2XP_008766172.1  sodium-dependent serotonin transporter isoform X1

      See identical proteins and their annotated locations for XP_008766172.1

      UniProtKB/Swiss-Prot
      P31652
      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_017597041.1XP_017452530.1  sodium-dependent serotonin transporter isoform X1

      UniProtKB/Swiss-Prot
      P31652
      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_017597043.1XP_017452532.1  sodium-dependent serotonin transporter isoform X1

      UniProtKB/Swiss-Prot
      P31652
      Related
      ENSRNOP00000004717.4, ENSRNOT00000004717.6
      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

    Alternate Rn_Celera

    Genomic

    1. AC_000078.1 Alternate Rn_Celera

      Range
      60845942..60866725
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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