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    Fgd3 FYVE, RhoGEF and PH domain containing 3 [ Mus musculus (house mouse) ]

    Gene ID: 30938, updated on 27-Nov-2024

    Summary

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    Official Symbol
    Fgd3provided by MGI
    Official Full Name
    FYVE, RhoGEF and PH domain containing 3provided by MGI
    Primary source
    MGI:MGI:1353657
    See related
    Ensembl:ENSMUSG00000037946 AllianceGenome:MGI:1353657
    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
    ZFYVE5; 5830461L01Rik
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity. Involved in filopodium assembly. Predicted to be located in cytoskeleton. Predicted to be active in cytoplasm. Is expressed in several structures, including brain; cranial ganglion; dorsal root ganglion; lung; and spleen. Orthologous to human FGD3 (FYVE, RhoGEF and PH domain containing 3). [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Broad expression in spleen adult (RPKM 7.4), thymus adult (RPKM 4.4) and 20 other tissues See more
    Orthologs
    human all
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    Genomic context

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    See Fgd3 in Genome Data Viewer
    Location:
    13 A5; 13 25.18 cM
    Exon count:
    22
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 13 NC_000079.7 (49415030..49473783, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 13 NC_000079.6 (49261554..49320313, complement)

    Chromosome 13 - NC_000079.7Genomic Context describing neighboring genes Neighboring gene STARR-positive B cell enhancer ABC_E7237 Neighboring gene STARR-positive B cell enhancer ABC_E5396 Neighboring gene caspase recruitment domain family, member 19 Neighboring gene STARR-positive B cell enhancer ABC_E8525 Neighboring gene STARR-positive B cell enhancer ABC_E8526 Neighboring gene STARR-positive B cell enhancer mm9_chr13:49346365-49346665 Neighboring gene RIKEN cDNA E030007A22 gene Neighboring gene predicted gene, 52024 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:49363145-49363298 Neighboring gene sushi domain containing 3 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:49402581-49402764 Neighboring gene CapStarr-seq enhancer MGSCv37_chr13:49402849-49403036 Neighboring gene STARR-positive B cell enhancer ABC_E4067 Neighboring gene BICD cargo adaptor 2 Neighboring gene STARR-seq mESC enhancer starr_34478 Neighboring gene inositol 1,3,4,5,6-pentakisphosphate 2-kinase Neighboring gene centromere protein P

    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
    • 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. Novel insights into FGD3, a putative GEF for Cdc42, that undergoes SCF(FWD1/beta-TrCP)-mediated proteasomal degradation analogous to that of its homologue FGD1 but regulates cell morphology and motility differently from FGD1. Hayakawa M, et al. Genes Cells, 2008 Apr. PMID 18363964
    2. Isolation, characterization, and mapping of the mouse Fgd3 gene, a new Faciogenital Dysplasia (FGD1; Aarskog Syndrome) gene homologue. Pasteris NG, et al. Gene, 2000 Jan 25. PMID 10721717
    3. Multifactorial genetics of exencephaly in SELH/Bc mice. Juriloff DM, et al. Teratology, 2001 Oct. PMID 11598925
    4. Transcriptional Networks Controlled by NKX2-1 in the Development of Forebrain GABAergic Neurons. Sandberg M, et al. Neuron, 2016 Sep 21. PMID 27657450, Free PMC Article
    5. Conserved molecular signatures of neurogenesis in the hippocampal subgranular zone of rodents and primates. Miller JA, et al. Development, 2013 Nov. PMID 24154525, Free PMC Article

    See all (18) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. FGD3, which was identified as a homologue of FGD1 but has been poorly characterized, has conserved the same motif and is down-regulated similarly by SCF(FWD1/beta-TrCP).
      Title: Novel insights into FGD3, a putative GEF for Cdc42, that undergoes SCF(FWD1/beta-TrCP)-mediated proteasomal degradation analogous to that of its homologue FGD1 but regulates cell morphology and motility differently from FGD1.
    Submit: New GeneRIF Correction

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (1) 

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    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 filopodium assembly IDA
    Inferred from Direct Assay
    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
    		  

    General protein information

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    Preferred Names
    FYVE, RhoGEF and PH domain-containing protein 3
    Names
    Fgd1 family, member 3
    faciogenital dysplasia homolog 3

    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_015759.2 → NP_056574.2  FYVE, RhoGEF and PH domain-containing protein 3

      See identical proteins and their annotated locations for NP_056574.2

      Status: VALIDATED

      Source sequence(s)
      AK157835
      Consensus CDS
      CCDS26499.1
      UniProtKB/Swiss-Prot
      A2RT26, O88842, Q8BQ72
      UniProtKB/TrEMBL
      Q3TNB8
      Related
      ENSMUSP00000105714.3, ENSMUST00000110087.9
      Conserved Domains (4) summary
      cd00160
      Location:156 → 335
      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:606 → 710
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:527 → 580
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      cl17171
      Location:367 → 474
      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_000079.7 Reference GRCm39 C57BL/6J

      Range
      49415030..49473783 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_036158066.1 → XP_036013959.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X2

      UniProtKB/Swiss-Prot
      A2RT26, O88842, Q8BQ72
      Conserved Domains (4) summary
      cd00160
      Location:156 → 335
      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:570 → 674
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:491 → 544
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      cl17171
      Location:367 → 460
      PH-like; Pleckstrin homology-like domain

    2. XM_006516929.5 → XP_006516992.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006516992.1

      UniProtKB/Swiss-Prot
      A2RT26, O88842, Q8BQ72
      UniProtKB/TrEMBL
      Q3TNB8
      Conserved Domains (4) summary
      cd00160
      Location:156 → 335
      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:606 → 710
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:527 → 580
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain

    3. XM_006516930.5 → XP_006516993.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006516993.1

      UniProtKB/Swiss-Prot
      A2RT26, O88842, Q8BQ72
      UniProtKB/TrEMBL
      Q3TNB8
      Conserved Domains (4) summary
      cd00160
      Location:156 → 335
      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:606 → 710
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:527 → 580
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain

    4. XM_036158065.1 → XP_036013958.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      UniProtKB/Swiss-Prot
      A2RT26, O88842, Q8BQ72
      UniProtKB/TrEMBL
      Q3TNB8
      Conserved Domains (4) summary
      cd00160
      Location:156 → 335
      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:606 → 710
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:527 → 580
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain

    5. XM_006516931.5 → XP_006516994.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_006516994.1

      UniProtKB/Swiss-Prot
      A2RT26, O88842, Q8BQ72
      UniProtKB/TrEMBL
      Q3TNB8
      Related
      ENSMUSP00000048692.5, ENSMUST00000048716.11
      Conserved Domains (4) summary
      cd00160
      Location:156 → 335
      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:606 → 710
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:527 → 580
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O88842.1 GenPept UniProtKB/Swiss-Prot:O88842

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