Arhgef5 Rho guanine nucleotide exchange factor 5 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Arhgef5provided by RGD
Official Full Name: Rho guanine nucleotide exchange factor 5provided by RGD
Primary source: RGD:620718
See related: EnsemblRapid:ENSRNOG00000005506 AllianceGenome:RGD:620718
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: Tim1
Summary: Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in several processes, including activation of GTPase activity; positive regulation of JUN kinase activity; and positive regulation of stress fiber assembly. Predicted to act upstream of or within several processes, including hematopoietic stem cell homeostasis; myeloid dendritic cell chemotaxis; and positive regulation of podosome assembly. Predicted to be located in cytosol; nucleoplasm; and plasma membrane. Predicted to be active in cytoplasm and nucleus. Orthologous to human ARHGEF5 (Rho guanine nucleotide exchange factor 5). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Kidney (RPKM 133.0), Lung (RPKM 68.6) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 4q24

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	4	NC_086022.1 (73087240..73112311)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	4	NC_051339.1 (72087205..72112316)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	4	NC_005103.4 (72710775..72736415)

Chromosome 4 - NC_086022.1 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 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?

Expression studies show that mr-gef is expressed by young neurons of the developing rodent CNS but not by progenitor cells in the ventricular zone (VZ).
Title: Expression of the guanine nucleotide exchange factor, mr-gef, is regulated during the differentiation of specific subsets of telencephalic neurons.

Submit: New GeneRIF Correction

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables guanyl-nucleotide exchange factor activity	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
acts_upstream_of_or_within hematopoietic stem cell homeostasis	ISO Inferred from Sequence Orthology more info
involved_in intracellular signal transduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within myeloid dendritic cell chemotaxis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of GTPase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of JUN kinase activity	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of podosome assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein import	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of stress fiber assembly	ISO Inferred from Sequence Orthology more info
NOT involved_in regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in regulation of actin cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of cytoskeleton organization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cell periphery	ISO Inferred from Sequence Orthology more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: rho guanine nucleotide exchange factor 5

Names: Rho guanine nucleotide exchange factor (GEF) 5

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_001427415.1 → NP_001414344.1 rho guanine nucleotide exchange factor 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000004

UniProtKB/TrEMBL

E9PT59

Related

ENSRNOP00000047891.6, ENSRNOT00000044780.7

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

NC_086022.1 Reference GRCr8

Range

73087240..73112311

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039108652.2 → XP_038964580.1 rho guanine nucleotide exchange factor 5 isoform X1

UniProtKB/TrEMBL

A0A8I6AM69, E9PT59

Conserved Domains (5) summary

cd11940
Location:1506 → 1560

SH3_ARHGEF5_19; Src homology 3 domain of the Rho guanine nucleotide exchange factors ARHGEF5 and ARHGEF19

PHA03247
Location:395 → 840

PHA03247; large tegument protein UL36; Provisional

cd01221
Location:1370 → 1496

PH_ephexin; Ephexin Pleckstrin homology (PH) domain

pfam00621
Location:1172 → 1348

RhoGEF; RhoGEF domain

pfam15441
Location:1 → 478

ARHGEF5_35; Rho guanine nucleotide exchange factor 5/35