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Syde1 synapse defective 1, Rho GTPase, homolog 1 (C. elegans) [ Mus musculus (house mouse) ]

Gene ID: 71709, updated on 27-Nov-2024

Summary

Official Symbol
Syde1provided by MGI
Official Full Name
synapse defective 1, Rho GTPase, homolog 1 (C. elegans)provided by MGI
Primary source
MGI:MGI:1918959
See related
Ensembl:ENSMUSG00000032714 AllianceGenome:MGI:1918959
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
mSYD1A; 1200008N06Rik
Summary
Enables GTPase activator activity. Acts upstream of or within several processes, including labyrinthine layer blood vessel development; synaptic vesicle docking; and synaptonemal complex assembly. Located in cerebellar mossy fiber; cytosol; and synaptic membrane. Is expressed in labyrinthine zone; placenta; spongiotrophoblast; trophectoderm; and trophoblast giant cell. Orthologous to human SYDE1 (synapse defective Rho GTPase homolog 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Broad expression in lung adult (RPKM 28.5), adrenal adult (RPKM 26.5) and 24 other tissues See more
Orthologs
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Genomic context

See Syde1 in Genome Data Viewer
Location:
10 C1; 10 39.72 cM
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 10 NC_000076.7 (78420336..78427798, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 10 NC_000076.6 (78584502..78591964, complement)

Chromosome 10 - NC_000076.7Genomic Context describing neighboring genes Neighboring gene vomeronasal 2, receptor, pseudogene 92 Neighboring gene STARR-positive B cell enhancer ABC_E8865 Neighboring gene STARR-positive B cell enhancer ABC_E2945 Neighboring gene ilvB (bacterial acetolactate synthase)-like Neighboring gene CapStarr-seq enhancer MGSCv37_chr10:78057364-78057547 Neighboring gene predicted gene, 30346 Neighboring gene olfactory receptor family 1 subfamily I member 1

Genomic regions, transcripts, and products

Expression

  • 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

Variation

Alleles

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

General gene information

Markers

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables GTPase activator activity IDA
Inferred from Direct Assay
more info
PubMed 
enables GTPase activator activity ISO
Inferred from Sequence Orthology
more info
PubMed 
enables GTPase activator activity ISS
Inferred from Sequence or Structural Similarity
more info
 
enables GTPase regulator activity ISO
Inferred from Sequence Orthology
more info
PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding IDA
Inferred from Direct Assay
more info
PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within actin cytoskeleton organization ISO
Inferred from Sequence Orthology
more info
PubMed 
involved_in activation of GTPase activity ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in cell migration IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within cell migration ISO
Inferred from Sequence Orthology
more info
PubMed 
acts_upstream_of_or_within labyrinthine layer blood vessel development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within labyrinthine layer development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within positive regulation of synaptic transmission IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of trophoblast cell migration ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of trophoblast cell migration ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in regulation of Ras protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
 
acts_upstream_of_or_within regulation of Ras protein signal transduction IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of cytoskeleton organization ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of cytoskeleton organization ISS
Inferred from Sequence or Structural Similarity
more info
 
involved_in signal transduction IEA
Inferred from Electronic Annotation
more info
 
acts_upstream_of_or_within synaptic vesicle docking IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within synaptonemal complex assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
Component Evidence Code Pubs
located_in cerebellar mossy fiber IDA
Inferred from Direct Assay
more info
PubMed 
located_in cytosol IDA
Inferred from Direct Assay
more info
PubMed 
located_in presynapse IEA
Inferred from Electronic Annotation
more info
 
is_active_in synaptic membrane IBA
Inferred from Biological aspect of Ancestor
more info
 
located_in synaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
rho GTPase-activating protein SYDE1
Names
protein syd-1 homolog 1
synapse defective protein 1 homolog 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_027875.1NP_082151.1  rho GTPase-activating protein SYDE1

    See identical proteins and their annotated locations for NP_082151.1

    Status: VALIDATED

    Source sequence(s)
    AC153887
    Consensus CDS
    CCDS48613.1
    UniProtKB/Swiss-Prot
    Q9DBZ9
    UniProtKB/TrEMBL
    G3X960
    Related
    ENSMUSP00000043085.7, ENSMUST00000040580.7
    Conserved Domains (2) summary
    pfam16885
    Location:73250
    CAC1F_C; Voltage-gated calcium channel subunit alpha, C-term
    cl02570
    Location:396601
    RhoGAP; RhoGAP: GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when ...

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000076.7 Reference GRCm39 C57BL/6J

    Range
    78420336..78427798 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006514148.1XP_006514211.1  rho GTPase-activating protein SYDE1 isoform X1

    Conserved Domains (2) summary
    PHA03247
    Location:57263
    PHA03247; large tegument protein UL36; Provisional
    cl02570
    Location:396529
    RhoGAP; GTPase-activator protein (GAP) for Rho-like GTPases; GAPs towards Rho/Rac/Cdc42-like small GTPases. Small GTPases (G proteins) cluster into distinct families, and all act as molecular switches, active in their GTP-bound form but inactive when bound to ...

RNA

  1. XR_001779604.2 RNA Sequence