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    Syngap1 synaptic Ras GTPase activating protein 1 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 192117, updated on 9-Dec-2024

    Summary

    Official Symbol
    Syngap1provided by RGD
    Official Full Name
    synaptic Ras GTPase activating protein 1provided by RGD
    Primary source
    RGD:621090
    See related
    EnsemblRapid:ENSRNOG00000000483 AllianceGenome:RGD:621090
    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
    Syngap
    Summary
    This gene encodes a Ras GTPase activating protein that is a member of the N-methyl-D-aspartate receptor complex. The N-terminal domain of the protein contains a Ras-GAP domain, a pleckstrin homology domain, and a C2 domain that may be involved in binding of calcium and phospholipids. The C-terminal domain consists of a ten histidine repeat region, serine and tyrosine phosphorylation sites, and a T/SXV motif required for postsynaptic scaffold protein interaction. The encoded protein negatively regulates Ras, Rap and alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptor trafficking to the postsynaptic membrane to regulate synaptic plasticity and neuronal homeostasis. Homozygous null mutations in mice result in early post-embryonic lethality, while heterozygous mutant mice display a variety of phenotypes that include learning and memory defects, hyperactivity, and audiogenic seizures. [provided by RefSeq, Nov 2016]
    Expression
    Biased expression in Brain (RPKM 97.7), Uterus (RPKM 19.9) and 7 other tissues See more
    Orthologs
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    Genomic context

    See Syngap1 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    21
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (5028226..5058519)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (5026366..5056659)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (5535434..5564657)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene PHD finger protein 1 Neighboring gene cutA divalent cation tolerance homolog Neighboring gene zinc finger and BTB domain containing 9 Neighboring gene uncharacterized LOC120098811 Neighboring gene BCL2-antagonist/killer 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 Functions

    What's a GeneRIF?

    Interactions

    General gene information

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables GTPase activator activity PubMed 
    enables GTPase activator activity  
    enables GTPase activator activity  
    enables SH3 domain binding  
    enables protein binding PubMed 
    enables protein kinase binding PubMed 
    Items 1 - 25 of 30
    Process Evidence Code Pubs
    involved_in Ras protein signal transduction  
    acts_upstream_of_or_within Ras protein signal transduction  
    involved_in axonogenesis  
    acts_upstream_of axonogenesis  
    involved_in dendrite development  
    acts_upstream_of_or_within dendrite development  
    involved_in maintenance of postsynaptic specialization structure  
    involved_in maintenance of postsynaptic specialization structure  
    involved_in modulation of chemical synaptic transmission  
    involved_in negative regulation of Ras protein signal transduction PubMed 
    involved_in negative regulation of Ras protein signal transduction  
    involved_in negative regulation of axonogenesis  
    acts_upstream_of_or_within negative regulation of axonogenesis  
    involved_in negative regulation of neuron apoptotic process  
    acts_upstream_of_or_within negative regulation of neuron apoptotic process  
    involved_in neuron apoptotic process  
    acts_upstream_of neuron apoptotic process  
    involved_in pattern specification process  
    acts_upstream_of_or_within pattern specification process  
    involved_in receptor clustering  
    acts_upstream_of_or_within receptor clustering  
    involved_in regulation of MAPK cascade  
    acts_upstream_of_or_within regulation of MAPK cascade  
    involved_in regulation of long-term neuronal synaptic plasticity  
    acts_upstream_of_or_within regulation of long-term neuronal synaptic plasticity  
    involved_in regulation of synapse structure or activity  
    acts_upstream_of_or_within regulation of synapse structure or activity  
    involved_in regulation of synaptic plasticity PubMed 
    involved_in visual learning  
    acts_upstream_of_or_within visual learning  
    Items 1 - 25 of 30
    Component Evidence Code Pubs
    located_in dendritic shaft  
    located_in dendritic shaft  
    is_active_in glutamatergic synapse PubMed 
    located_in glutamatergic synapse  
    is_active_in glutamatergic synapse  
    located_in membrane  
    located_in plasma membrane  
    located_in postsynaptic density  
    located_in postsynaptic density  
    is_active_in postsynaptic density, intracellular component PubMed 
    located_in synapse PubMed 

    General protein information

    Preferred Names
    ras/Rap GTPase-activating protein SynGAP
    Names
    neuronal RasGAP
    p135 SynGAP
    ras GTPase-activating protein SynGAP
    synaptic Ras-GAP 1

    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_001113409.3NP_001106880.2  ras/Rap GTPase-activating protein SynGAP isoform 2

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (2) has a distinct N-terminus and is shorter than isoform 1.
      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      A0A8I6AAC7
      Related
      ENSRNOP00000089675.1, ENSRNOT00000120108.2
      Conserved Domains (7) summary
      cd04013
      Location:193355
      C2_SynGAP_like; C2 domain present in Ras GTPase activating protein (GAP) family
      cd05136
      Location:346669
      RasGAP_DAB2IP; Ras-GTPase Activating Domain of DAB2IP and similar proteins
      smart00323
      Location:342661
      RasGAP; GTPase-activator protein for Ras-like GTPases
      cd13375
      Location:63254
      PH_SynGAP; Synaptic Ras-GTPase activating protein Pleckstrin homology (PH) domain
      pfam00169
      Location:129192
      PH; PH domain
      pfam08912
      Location:11371196
      Rho_Binding; Rho Binding
      pfam12004
      Location:6591236
      DUF3498; Domain of unknown function (DUF3498)
    2. NM_181092.5NP_851606.3  ras/Rap GTPase-activating protein SynGAP isoform 1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) encodes the longer isoform (1).
      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/Swiss-Prot
      O88449, Q9ESK6, Q9ET81, Q9QUH6, Q9QX02, Q9QX06, Q9QX12
      Related
      ENSRNOP00000079584.1, ENSRNOT00000116745.2
      Conserved Domains (7) summary
      cd04013
      Location:252414
      C2_SynGAP_like; C2 domain present in Ras GTPase activating protein (GAP) family
      cd05136
      Location:405728
      RasGAP_DAB2IP; Ras-GTPase Activating Domain of DAB2IP and similar proteins
      smart00323
      Location:401720
      RasGAP; GTPase-activator protein for Ras-like GTPases
      cd13375
      Location:122313
      PH_SynGAP; Synaptic Ras-GTPase activating protein Pleckstrin homology (PH) domain
      pfam00169
      Location:188251
      PH; PH domain
      pfam08912
      Location:11961255
      Rho_Binding; Rho Binding
      pfam12004
      Location:7181295
      DUF3498; Domain of unknown function (DUF3498)

    RNA

    1. NR_144519.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses an alternate 3' exon structure compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
      Source sequence(s)
      JAXUCZ010000020

    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_086038.1 Reference GRCr8

      Range
      5028226..5058519
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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