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

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, Apr 2022]
Expression: Broad expression in lung adult (RPKM 28.5), adrenal adult (RPKM 26.5) and 24 other tissues See more
Orthologs: human all
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Genomic context

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_000076.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Variation

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Alleles

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

Targeted (4) 1 citation

General gene information

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Markers

AI415009 (e-PCR)
- UniSTS:164442

MARC_13943-13944:1007583606:1 (e-PCR)
- UniSTS:267618

MARC_13943-13944:1025534548:1 (e-PCR)
- UniSTS:267618

BB043000 (e-PCR)
- UniSTS:185842

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 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 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 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 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
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

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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)

NM_027875.1 → NP_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:73 → 250

CAC1F_C; Voltage-gated calcium channel subunit alpha, C-term

cl02570
Location:396 → 601

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

NC_000076.7 Reference GRCm39 C57BL/6J

Range

78420336..78427798 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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

Conserved Domains (2) summary

PHA03247
Location:57 → 263

PHA03247; large tegument protein UL36; Provisional

cl02570
Location:396 → 529

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 ...