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    Fgd4 FYVE, RhoGEF and PH domain containing 4 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 246174, updated on 18-Sep-2024

    Summary

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    Symbol
    Fgd4provided by RGD
    Full Name
    FYVE, RhoGEF and PH domain containing 4provided by RGD
    Primary source
    RGD:708357
    See related
    EnsemblRapid:ENSRNOG00000059491 AllianceGenome:RGD:708357
    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
    Summary
    Enables actin filament binding activity. Involved in positive regulation of JNK cascade and regulation of cell shape. Acts upstream of or within positive regulation of JUN kinase activity. Predicted to be located in filopodium and lamellipodium. Predicted to be active in cytoplasm. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease type 4H. Orthologous to human FGD4 (FYVE, RhoGEF and PH domain containing 4). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Liver (RPKM 128.0), Kidney (RPKM 96.4) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Fgd4 in Genome Data Viewer
    Location:
    11q23
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 11 NC_086029.1 (97904182..98055190)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 11 NC_051346.1 (84399989..84551013)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 11 NC_005110.4 (88699222..88796677)

    Chromosome 11 - NC_086029.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102546862 Neighboring gene olfactory receptor 19-like Neighboring gene ribosomal protein S27a, pseudogene 23 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene dynamin 1-like

    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. Association of frabin with the actin cytoskeleton is essential for microspike formation through activation of Cdc42 small G protein. Umikawa M, et al. J Biol Chem, 1999 Sep 3. PMID 10464238
    2. Identification of splicing variants of Frabin with partly different functions and tissue distribution. Ikeda W, et al. Biochem Biophys Res Commun, 2001 Sep 7. PMID 11527409
    3. Frabin, a novel FGD1-related actin filament-binding protein capable of changing cell shape and activating c-Jun N-terminal kinase. Obaishi H, et al. J Biol Chem, 1998 Jul 24. PMID 9668039
    4. Mutations in FGD4 encoding the Rho GDP/GTP exchange factor FRABIN cause autosomal recessive Charcot-Marie-Tooth type 4H. Delague V, et al. Am J Hum Genet, 2007 Jul. PMID 17564959, Free PMC Article
    5. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    See all (6) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables actin binding IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables actin filament binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables guanyl-nucleotide exchange factor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables guanyl-nucleotide exchange factor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in filopodium assembly IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in lamellipodium assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within lamellipodium assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in microspike assembly IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within microspike assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of JNK cascade IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within positive regulation of JUN kinase activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of cell shape IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in filopodium IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in filopodium ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in lamellipodium IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in lamellipodium ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    FYVE, RhoGEF and PH domain-containing protein 4
    Names
    FGD1-related F-actin-binding protein
    actin filament-binding protein frabin

    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_001415054.1 → NP_001401983.1  FYVE, RhoGEF and PH domain-containing protein 4 isoform 1

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/TrEMBL
      A0A0G2K2S8, A6JSP9
      Related
      ENSRNOP00000072359.2, ENSRNOT00000078367.3

    2. NM_001415055.1 → NP_001401984.1  FYVE, RhoGEF and PH domain-containing protein 4 isoform 2

      Status: VALIDATED

      Source sequence(s)
      JAXUCZ010000011
      UniProtKB/Swiss-Prot
      O88387
      UniProtKB/TrEMBL
      A0A0G2K8X0, A6JSQ0
      Related
      ENSRNOP00000100627.1, ENSRNOT00000145334.1

    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_086029.1 Reference GRCr8

      Range
      97904182..98055190
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_039087982.2 → XP_038943910.1  FYVE, RhoGEF and PH domain-containing protein 4 isoform X1

      UniProtKB/TrEMBL
      A0A8I6GK89, A6JSP9
      Related
      ENSRNOP00000092594.1, ENSRNOT00000100508.2
      Conserved Domains (4) summary
      cd00160
      Location:281 → 465
      RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
      cd13236
      Location:711 → 813
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15791
      Location:497 → 590
      PH1_FDG4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins 4, N-terminal Pleckstrin homology (PH) domain
      cd15741
      Location:628 → 692
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

    2. XM_039087984.2 → XP_038943912.1  FYVE, RhoGEF and PH domain-containing protein 4 isoform X2

      UniProtKB/Swiss-Prot
      O88387
      UniProtKB/TrEMBL
      A0A0G2K8X0, A6JSQ0
      Conserved Domains (4) summary
      cd00160
      Location:207 → 391
      RhoGEF; Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases; Also called Dbl-homologous (DH) domain. It appears that PH domains invariably occur C-terminal to RhoGEF/DH domains.
      cd13236
      Location:637 → 739
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15791
      Location:423 → 516
      PH1_FDG4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins 4, N-terminal Pleckstrin homology (PH) domain
      cd15741
      Location:554 → 618
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

    3. XM_063270283.1 → XP_063126353.1  FYVE, RhoGEF and PH domain-containing protein 4 isoform X3

    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O88387.1 GenPept UniProtKB/Swiss-Prot:O88387

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