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    Arhgef39 Rho guanine nucleotide exchange factor 39 [ Mus musculus (house mouse) ]

    Gene ID: 230098, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Arhgef39provided by MGI
    Official Full Name
    Rho guanine nucleotide exchange factor 39provided by MGI
    Primary source
    MGI:MGI:3036286
    See related
    Ensembl:ENSMUSG00000051517 AllianceGenome:MGI:3036286
    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
    E130306D19Rik
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity. Predicted to be involved in positive regulation of cell migration. Predicted to be active in plasma membrane. Is expressed in cerebral cortex ventricular layer. Orthologous to human ARHGEF39 (Rho guanine nucleotide exchange factor 39). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Broad expression in large intestine adult (RPKM 17.9), colon adult (RPKM 15.8) and 21 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Arhgef39 in Genome Data Viewer
    Location:
    4 A5; 4 23.04 cM
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (43496139..43508747, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (43496139..43508747, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E834 Neighboring gene coiled-coil domain containing 107 Neighboring gene RNA component of mitochondrial RNAase P Neighboring gene carbonic anhydrase 9 Neighboring gene STARR-positive B cell enhancer ABC_E9584 Neighboring gene tropomyosin 2, beta Neighboring gene talin 1 Neighboring gene STARR-seq mESC enhancer starr_10056

    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 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. Single-cell transcriptomic analysis of mouse neocortical development. Loo L, et al. Nat Commun, 2019 Jan 11. PMID 30635555, Free PMC Article
    2. The Interleukin-2-mTORc1 Kinase Axis Defines the Signaling, Differentiation, and Metabolism of T Helper 1 and Follicular B Helper T Cells. Ray JP, et al. Immunity, 2015 Oct 20. PMID 26410627, Free PMC Article
    3. The Vertebrate Genome Annotation browser 10 years on. Harrow JL, et al. Nucleic Acids Res, 2014 Jan. PMID 24316575, Free PMC Article
    4. Cell-Type-Specific Gene Expression in Developing Mouse Neocortex: Intermediate Progenitors Implicated in Axon Development. Bedogni F, et al. Front Mol Neurosci, 2021. PMID 34321999, 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 (14) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in positive regulation of cell migration IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in positive regulation of cell migration ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of cell migration ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    Component Evidence Code Pubs
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in plasma membrane ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in plasma membrane ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  

    General protein information

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    Preferred Names
    rho guanine nucleotide exchange factor 39
    Names
    Rho guanine nucleotide exchange factor (GEF) 39
    vav-like protein C9orf100 homolog

    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_001013377.3 → NP_001013395.2  rho guanine nucleotide exchange factor 39

      See identical proteins and their annotated locations for NP_001013395.2

      Status: VALIDATED

      Source sequence(s)
      AL732506, BC080700, BY110275, BY210170, CA326178
      Consensus CDS
      CCDS18098.1
      UniProtKB/Swiss-Prot
      A2AIN0, Q3TQV6, Q66JY6
      Related
      ENSMUSP00000055293.7, ENSMUST00000054538.13
      Conserved Domains (4) summary
      smart00233
      Location:228 → 331
      PH; Pleckstrin homology domain
      pfam00169
      Location:230 → 331
      PH; PH domain
      pfam00621
      Location:27 → 196
      RhoGEF; RhoGEF domain
      cl17171
      Location:199 → 255
      PH-like; Pleckstrin homology-like 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_000070.7 Reference GRCm39 C57BL/6J

      Range
      43496139..43508747 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030253417.1 → XP_030109277.1  rho guanine nucleotide exchange factor 39 isoform X1

      Conserved Domains (3) summary
      smart00233
      Location:228 → 331
      PH; Pleckstrin homology domain
      pfam00621
      Location:27 → 195
      RhoGEF; RhoGEF domain
      cl17171
      Location:199 → 255
      PH-like; Pleckstrin homology-like domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q66JY6.2 GenPept UniProtKB/Swiss-Prot:Q66JY6

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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