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

    Gene ID: 140898, updated on 18-Sep-2024

    Summary

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    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

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    See Arhgef5 in Genome Data Viewer
    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_086022.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102548553 Neighboring gene olfactory receptor family 2 subfamily A member 20 Neighboring gene olfactory receptor family 2 subfamily A member 57 Neighboring gene NOBOX oogenesis homeobox Neighboring gene thiamin pyrophosphokinase 1 Neighboring gene uncharacterized LOC108350700

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • 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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    Related articles in PubMed

    1. Expression and molecular characterization of alternative transcripts of the ARHGEF5/TIM oncogene specific for human breast cancer. Debily MA, et al. Hum Mol Genet, 2004 Feb 1. PMID 14662653
    2. Regulation of immature dendritic cell migration by RhoA guanine nucleotide exchange factor Arhgef5. Wang Z, et al. J Biol Chem, 2009 Oct 16. PMID 19713215, Free PMC Article
    3. The guanine nucleotide exchange factor Arhgef5 plays crucial roles in Src-induced podosome formation. Kuroiwa M, et al. J Cell Sci, 2011 May 15. PMID 21525037
    4. TIM, a Dbl-related protein, regulates cell shape and cytoskeletal organization in a Rho-dependent manner. Xie X, et al. Cell Signal, 2005 Apr. PMID 15601624
    5. Expression of the guanine nucleotide exchange factor, mr-gef, is regulated during the differentiation of specific subsets of telencephalic neurons. Bithell A, et al. Brain Res Dev Brain Res, 2003 Dec 19. PMID 14643017

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. 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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    Homology

    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)

    1. NM_001427415.1 → NP_001414344.1  rho guanine nucleotide exchange factor 5

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000004
      UniProtKB/TrEMBL
      A0A8I6AM69, 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

    1. NC_086022.1 Reference GRCr8

      Range
      73087240..73112311
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. 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
    Nucleotide Protein Strain
    Heading Accession and Version

    Gene LinkOut

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