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    Clstn3 calsyntenin 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 171393, updated on 9-Dec-2024

    Summary

    Official Symbol
    Clstn3provided by RGD
    Official Full Name
    calsyntenin 3provided by RGD
    Primary source
    RGD:621153
    See related
    EnsemblRapid:ENSRNOG00000011156 AllianceGenome:RGD:621153
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    Cs3; Cstn3
    Summary
    Predicted to enable cell-cell adhesion mediator activity; enzyme inhibitor activity; and neurexin family protein binding activity. Predicted to be involved in several processes, including cold-induced thermogenesis; regulation of synapse assembly; and synapse assembly. Predicted to act upstream of or within several processes, including chemical synaptic transmission; positive regulation of protein localization to synapse; and synapse assembly. Located in postsynaptic membrane. Orthologous to human CLSTN3 (calsyntenin 3). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Brain (RPKM 498.7), Adrenal (RPKM 58.7) and 1 other tissue See more
    Orthologs
    NEW
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    Try the new Transcript table

    Genomic context

    See Clstn3 in Genome Data Viewer
    Location:
    4q42
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 4 NC_086022.1 (159017795..159051069, complement)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 4 NC_051339.1 (157331494..157364769, complement)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 4 NC_005103.4 (157044736..157078013, complement)

    Chromosome 4 - NC_086022.1Genomic Context describing neighboring genes Neighboring gene peroxisomal biogenesis factor 5 Neighboring gene 60S ribosomal protein L17 pseudogene Neighboring gene Zinc finger protein 42-like Neighboring gene uncharacterized LOC102553636 Neighboring gene uncharacterized LOC120102383 Neighboring gene complement C1r subcomponent like

    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

    General gene information

    Markers

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables calcium ion binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables cell-cell adhesion mediator activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables cell-cell adhesion mediator activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables cell-cell adhesion mediator activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables enzyme inhibitor activity ISO
    Inferred from Sequence Orthology
    more info
     
    enables enzyme inhibitor activity ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    enables neurexin family protein binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables neurexin family protein binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables neurexin family protein binding ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Process Evidence Code Pubs
    involved_in L-ascorbic acid metabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in adaptive thermogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in adaptive thermogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in chemical synaptic transmission NAS
    Non-traceable Author Statement
    more info
    PubMed 
    involved_in cold-induced thermogenesis ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in cold-induced thermogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in excitatory synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in excitatory synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in homophilic cell adhesion via plasma membrane adhesion molecules IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in inhibitory synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in inhibitory synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in motor learning ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of excitatory synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of excitatory synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of lipid droplet fusion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of lipid droplet fusion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in negative regulation of lipid storage ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in negative regulation of lipid storage ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of inhibitory synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of inhibitory synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of lipid catabolic process ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of lipid catabolic process ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in positive regulation of protein localization to synapse IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of protein localization to synapse ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of synapse assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of synapse assembly IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in positive regulation of synaptic transmission IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in positive regulation of synaptic transmission IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within positive regulation of synaptic transmission ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein secretion ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in protein secretion ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of cell growth IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within regulation of cell growth ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of excitatory synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of excitatory synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of presynapse assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in regulation of presynapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in regulation of synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in sympathetic neuron projection extension ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in sympathetic neuron projection extension ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in synapse assembly IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within synapse assembly ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in synaptic transmission, GABAergic IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within synaptic transmission, GABAergic ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in synaptic transmission, glutamatergic IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_or_within synaptic transmission, glutamatergic ISO
    Inferred from Sequence Orthology
    more info
     
    Component Evidence Code Pubs
    located_in GABA-ergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in GABA-ergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    located_in Golgi membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in cell surface IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in cell surface IEA
    Inferred from Electronic Annotation
    more info
     
    located_in cell surface ISO
    Inferred from Sequence Orthology
    more info
     
    located_in dendrite IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in endoplasmic reticulum ISO
    Inferred from Sequence Orthology
    more info
     
    located_in endoplasmic reticulum membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in endoplasmic reticulum membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in endoplasmic reticulum membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in glutamatergic synapse ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in lipid droplet ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in lipid droplet ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in neuron projection IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in organelle membrane contact site ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in organelle membrane contact site ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in postsynaptic density ISO
    Inferred from Sequence Orthology
    more info
     
    located_in postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
     
    is_active_in postsynaptic density membrane ISO
    Inferred from Sequence Orthology
    more info
     
    is_active_in postsynaptic membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in postsynaptic membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in postsynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     
    located_in postsynaptic membrane ISO
    Inferred from Sequence Orthology
    more info
     
    part_of protein-containing complex IEA
    Inferred from Electronic Annotation
    more info
     
    part_of protein-containing complex ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    calsyntenin-3
    Names
    alc-beta
    alcadein-beta

    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_134376.1NP_599203.1  calsyntenin-3 precursor

      Status: PROVISIONAL

      Source sequence(s)
      AJ431642
      UniProtKB/Swiss-Prot
      A0A8I5ZY11, Q8R553
      UniProtKB/TrEMBL
      A6ILI4, G3V7J1
      Related
      ENSRNOP00000015570.1, ENSRNOT00000015570.5
      Conserved Domains (1) summary
      cd11304
      Location:150239
      Cadherin_repeat; Cadherin tandem repeat domain

    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_086022.1 Reference GRCr8

      Range
      159017795..159051069 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)