Syde1 synapse defective Rho GTPase homolog 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Syde1provided by RGD
Official Full Name: synapse defective Rho GTPase homolog 1provided by RGD
Primary source: RGD:1305857
See related: Ensembl:ENSRNOG00000007307 AllianceGenome:RGD:1305857
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: RGD1305857
Summary: Predicted to enable GTPase activator activity. Predicted to be involved in positive regulation of trophoblast cell migration and regulation of cytoskeleton organization. Predicted to act upstream of or within several processes, including labyrinthine layer blood vessel development; synaptic vesicle docking; and synaptonemal complex assembly. Predicted to be located in cerebellar mossy fiber; cytosol; and synaptic membrane. Orthologous to human SYDE1 (synapse defective Rho GTPase homolog 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Adrenal (RPKM 107.3), Heart (RPKM 104.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q11

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (11683505..11689491)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (11032931..11038917)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (14037646..14043632)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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General gene information

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Markers

RH138757 (e-PCR)
- UniSTS:220844

RH129156 (e-PCR)
- UniSTS:212464

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables GTPase activator activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activator activity	ISO Inferred from Sequence Orthology more info
enables GTPase regulator activity	ISO Inferred from Sequence Orthology more info
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within actin cytoskeleton organization	ISO Inferred from Sequence Orthology 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
acts_upstream_of_or_within labyrinthine layer blood vessel development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within labyrinthine layer development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of synaptic transmission	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within synaptonemal complex assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cerebellar mossy fiber	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
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	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: rho GTPase-activating protein SYDE1

Names: protein syd-1 homolog 1; synapse defective 1, Rho GTPase, 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_001191876.1 → NP_001178805.1 rho GTPase-activating protein SYDE1

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000007

UniProtKB/Swiss-Prot

D3ZZN9

Related

ENSRNOP00000009606.4, ENSRNOT00000009606.7

Conserved Domains (2) summary

PHA03247
Location:48 → 263

PHA03247; large tegument protein UL36; Provisional

cl02570
Location:396 → 601

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 ...