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    Fgd3 FYVE, RhoGEF and PH domain containing 3 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 361223, updated on 11-Apr-2024

    Summary

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    Official Symbol
    Fgd3provided by RGD
    Official Full Name
    FYVE, RhoGEF and PH domain containing 3provided by RGD
    Primary source
    RGD:1311725
    See related
    Ensembl:ENSRNOG00000016225 AllianceGenome:RGD:1311725
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable guanyl-nucleotide exchange factor activity and metal ion binding activity. Predicted to be involved in cytoskeleton organization and filopodium assembly. Predicted to be located in cytoskeleton. Predicted to be active in cytoplasm. Orthologous to human FGD3 (FYVE, RhoGEF and PH domain containing 3). [provided by Alliance of Genome Resources, Apr 2022]
    Expression
    Biased expression in Spleen (RPKM 78.8), Thymus (RPKM 54.3) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Fgd3 in Genome Data Viewer
    Location:
    17p14
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 17 NC_086035.1 (15531237..15593678)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 17 NC_051352.1 (15324848..15387271)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 17 NC_005116.4 (15737962..15800403)

    Chromosome 17 - NC_086035.1Genomic Context describing neighboring genes Neighboring gene inositol-pentakisphosphate 2-kinase Neighboring gene ribosomal protein S12 like 8 Neighboring gene BICD cargo adaptor 2 Neighboring gene uncharacterized LOC134482823 Neighboring gene sushi domain containing 3 Neighboring gene caspase recruitment domain family, member 19

    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
    • 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. 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
    2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

    GeneRIFs: Gene References Into Functions

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm IBA
    Inferred from Biological aspect of Ancestor
    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

    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_001108409.1 → NP_001101879.1  FYVE, RhoGEF and PH domain-containing protein 3

      See identical proteins and their annotated locations for NP_001101879.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473977
      UniProtKB/TrEMBL
      A0A8I6AL39, A6J6W9, D3ZS34
      Related
      ENSRNOP00000063011.3, ENSRNOT00000067311.4
      Conserved Domains (5) summary
      cd13236
      Location:549 → 653
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15740
      Location:470 → 523
      FYVE_FGD3; FYVE-like domain found in FYVE, RhoGEF and PH domain-containing protein 3 (FGD3) and similar proteins
      pfam00169
      Location:367 → 458
      PH; PH domain
      pfam00621
      Location:157 → 336
      RhoGEF; RhoGEF domain
      cl17171
      Location:367 → 468
      PH-like; Pleckstrin homology-like domain

    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_086035.1 Reference GRCr8

      Range
      15531237..15593678
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_008771545.4 → XP_008769767.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_008769767.1

      UniProtKB/TrEMBL
      A0A0G2K2U9, A0A8I6AL39, A6J6W8
      Conserved Domains (5) summary
      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
      pfam00169
      Location:367 → 465
      PH; PH domain
      pfam00621
      Location:157 → 336
      RhoGEF; RhoGEF domain
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain

    2. XM_008771543.4 → XP_008769765.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_008769765.1

      UniProtKB/TrEMBL
      A0A0G2K2U9, A0A8I6AL39, A6J6W8
      Related
      ENSRNOP00000072384.1
      Conserved Domains (5) summary
      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
      pfam00169
      Location:367 → 465
      PH; PH domain
      pfam00621
      Location:157 → 336
      RhoGEF; RhoGEF domain
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain

    3. XM_008771544.4 → XP_008769766.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_008769766.1

      UniProtKB/TrEMBL
      A0A0G2K2U9, A0A8I6AL39, A6J6W8
      Conserved Domains (5) summary
      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
      pfam00169
      Location:367 → 465
      PH; PH domain
      pfam00621
      Location:157 → 336
      RhoGEF; RhoGEF domain
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain

    4. XM_008771546.3 → XP_008769768.1  FYVE, RhoGEF and PH domain-containing protein 3 isoform X1

      See identical proteins and their annotated locations for XP_008769768.1

      UniProtKB/TrEMBL
      A0A0G2K2U9, A0A8I6AL39, A6J6W8
      Conserved Domains (5) summary
      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
      pfam00169
      Location:367 → 465
      PH; PH domain
      pfam00621
      Location:157 → 336
      RhoGEF; RhoGEF domain
      cl17171
      Location:367 → 474
      PH-like; Pleckstrin homology-like domain
    Nucleotide Protein Strain
    Heading Accession and Version

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