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Syde2 synapse defective 1, Rho GTPase, homolog 2 (C. elegans) [ Mus musculus (house mouse) ]

Gene ID: 214804, updated on 5-Mar-2024

Summary

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Official Symbol
Syde2provided by MGI
Official Full Name
synapse defective 1, Rho GTPase, homolog 2 (C. elegans)provided by MGI
Primary source
MGI:MGI:3036264
See related
Ensembl:ENSMUSG00000036863 AllianceGenome:MGI:3036264
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
C430017H16Rik
Summary
Predicted to act upstream of or within cell migration. Is expressed in spongiotrophoblast and trophectoderm. Orthologous to human SYDE2 (synapse defective Rho GTPase homolog 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in bladder adult (RPKM 2.9), lung adult (RPKM 2.7) and 28 other tissues See more
Orthologs
human all
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Genomic context

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Location:
3 H2; 3 71.03 cM
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (145693160..145727475)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (145987405..146021720)

Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E6142 Neighboring gene STARR-positive B cell enhancer ABC_E11228 Neighboring gene RIKEN cDNA 2410004B18 gene Neighboring gene STARR-positive B cell enhancer ABC_E336 Neighboring gene STARR-positive B cell enhancer ABC_E9228 Neighboring gene B cell leukemia/lymphoma 10 Neighboring gene VISTA enhancer mm311 Neighboring gene STARR-positive B cell enhancer mm9_chr3:145651862-145652162 Neighboring gene predicted gene, 35352 Neighboring gene STARR-seq mESC enhancer starr_09212 Neighboring gene predicted gene, 40166 Neighboring gene STARR-seq mESC enhancer starr_09216 Neighboring gene predicted gene, 35409 Neighboring gene dynein axonemal intermediate chain 3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr3:145726222-145726405 Neighboring gene STARR-positive B cell enhancer mm9_chr3:145770955-145771256 Neighboring gene mucolipin 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

Bibliography

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Related articles in PubMed

  1. Association of dysfunctional synapse defective 1 (SYDE1) with restricted fetal growth - SYDE1 regulates placental cell migration and invasion. Lo HF, et al. J Pathol, 2017 Feb. PMID 27917469
  2. mSYD1A, a mammalian synapse-defective-1 protein, regulates synaptogenic signaling and vesicle docking. Wentzel C, et al. Neuron, 2013 Jun 19. PMID 23791195, Free PMC Article
  3. Transcriptome analysis of mouse stem cells and early embryos. Sharov AA, et al. PLoS Biol, 2003 Dec. PMID 14691545, Free PMC Article
  4. A conditional knockout resource for the genome-wide study of mouse gene function. Skarnes WC, et al. Nature, 2011 Jun 15. PMID 21677750, Free PMC Article
  5. A high-resolution anatomical atlas of the transcriptome in the mouse embryo. Diez-Roux G, et al. PLoS Biol, 2011 Jan 18. PMID 21267068, Free PMC Article

See all (13) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. In synapse-defective-1A knockout mice synapses assemble in normal numbers, but there is a significant reduction in synaptic vescicle docking.
    Title: mSYD1A, a mammalian synapse-defective-1 protein, regulates synaptogenic signaling and vesicle docking.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by MGI

Function Evidence Code Pubs
enables GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
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 
involved_in regulation of Ras protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
Component Evidence Code Pubs
is_active_in synaptic membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
rho GTPase-activating protein SYDE2

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_001166064.1 → NP_001159536.1  rho GTPase-activating protein SYDE2

    Status: VALIDATED

    Source sequence(s)
    AC123684, AK049496, CN702275
    Consensus CDS
    CCDS57259.1
    UniProtKB/TrEMBL
    E9PUP1, Q8BKW6
    Related
    ENSMUSP00000041897.7, ENSMUST00000039517.11
    Conserved Domains (2) summary
    cl02570
    Location:935 → 1149
    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 ...
    cl14603
    Location:800 → 915
    C2; C2 domain

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_000069.7 Reference GRCm39 C57BL/6J

    Range
    145693160..145727475
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006501292.4 → XP_006501355.3  rho GTPase-activating protein SYDE2 isoform X1

    UniProtKB/TrEMBL
    Q8BKW6
    Conserved Domains (3) summary
    PHA03379
    Location:109 → 326
    PHA03379; EBNA-3A; Provisional
    cl02570
    Location:936 → 1150
    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 ...
    cl14603
    Location:801 → 916
    C2; C2 domain

  2. XM_006501293.2 → XP_006501356.1  rho GTPase-activating protein SYDE2 isoform X2

    UniProtKB/TrEMBL
    A0A1D5RLX6
    Related
    ENSMUSP00000148542.2, ENSMUST00000212479.2
    Conserved Domains (2) summary
    cl02570
    Location:555 → 769
    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 ...
    cl14603
    Location:420 → 535
    C2; C2 domain

  3. XM_006501294.2 → XP_006501357.1  rho GTPase-activating protein SYDE2 isoform X3

    UniProtKB/TrEMBL
    A0A1D5RLX6
    Related
    ENSMUSP00000142954.2, ENSMUST00000200546.2
    Conserved Domains (2) summary
    cl02570
    Location:554 → 768
    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 ...
    cl14603
    Location:419 → 534
    C2; C2 domain
Nucleotide Protein Strain
Heading Accession and Version

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