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    Fgd2 FYVE, RhoGEF and PH domain containing 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 309653, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Fgd2provided by RGD
    Official Full Name
    FYVE, RhoGEF and PH domain containing 2provided by RGD
    Primary source
    RGD:1309840
    See related
    EnsemblRapid:ENSRNOG00000000528 AllianceGenome:RGD:1309840
    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 phosphatidylinositol phosphate binding activity. Predicted to be involved in cytoskeleton organization and filopodium assembly. Predicted to act upstream of or within positive regulation of JUN kinase activity. Predicted to be located in early endosome; nucleus; and ruffle. Predicted to be active in cytoplasm. Orthologous to human FGD2 (FYVE, RhoGEF and PH domain containing 2). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in Spleen (RPKM 235.3), Thymus (RPKM 63.1) and 6 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Fgd2 in Genome Data Viewer
    Location:
    20p12
    Exon count:
    20
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 20 NC_086038.1 (7426407..7443207)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 20 NC_051355.1 (7424795..7441603)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 20 NC_005119.4 (6973356..6990026)

    Chromosome 20 - NC_086038.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120098949 Neighboring gene peptidase inhibitor 16 Neighboring gene uncharacterized LOC134483863 Neighboring gene mitochondrial carrier 1 Neighboring gene uncharacterized LOC102547357 Neighboring gene uncharacterized LOC108349043 Neighboring gene uncharacterized LOC134483869

    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. FGD2, a CDC42-specific exchange factor expressed by antigen-presenting cells, localizes to early endosomes and active membrane ruffles. Huber C, et al. J Biol Chem, 2008 Dec 5. PMID 18838382, Free PMC Article
    2. 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
    3. 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 ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables metal ion binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables phosphatidylinositol phosphate binding ISO
    Inferred from Sequence Orthology
    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
    		  
    acts_upstream_of_or_within positive regulation of JUN kinase activity 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 cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoskeleton IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in early endosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in ruffle ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    FYVE, RhoGEF and PH domain-containing protein 2

    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_001107617.2 → NP_001101087.2  FYVE, RhoGEF and PH domain-containing protein 2

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000020
      UniProtKB/TrEMBL
      D3Z9I3
      Related
      ENSRNOP00000039744.5, ENSRNOT00000041665.6
      Conserved Domains (5) summary
      cd00160
      Location:104 → 288
      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:539 → 640
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd13386
      Location:320 → 427
      PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain
      cd15741
      Location:453 → 517
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
      pfam00169
      Location:320 → 417
      PH; PH 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_086038.1 Reference GRCr8

      Range
      7426407..7443207
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_063279151.1 → XP_063135221.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X7

    2. XM_039098715.2 → XP_038954643.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X10

      Conserved Domains (2) summary
      PRK10263
      Location:24 → 170
      PRK10263; DNA translocase FtsK; Provisional
      cd00160
      Location:156 → 340
      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.

    3. XM_039098714.2 → XP_038954642.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X6

      Conserved Domains (2) summary
      cd00160
      Location:156 → 340
      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.
      cd13386
      Location:372 → 479
      PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain

    4. XM_039098713.2 → XP_038954641.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X5

      Conserved Domains (3) summary
      cd00160
      Location:156 → 340
      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.
      cd13386
      Location:372 → 479
      PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain
      cd15741
      Location:505 → 569
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

    5. XM_039098711.2 → XP_038954639.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X1

      Related
      ENSRNOP00000105586.1, ENSRNOT00000123600.1
      Conserved Domains (4) summary
      cd00160
      Location:156 → 340
      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:591 → 692
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd13386
      Location:372 → 479
      PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain
      cd15741
      Location:505 → 569
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4

    6. XM_039098712.2 → XP_038954640.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X3

      Conserved Domains (4) summary
      cd00160
      Location:156 → 340
      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:560 → 661
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd15741
      Location:474 → 538
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
      cl17171
      Location:372 → 463
      PH-like; Pleckstrin homology-like domain

    7. XM_063279150.1 → XP_063135220.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X2

    8. XM_063279153.1 → XP_063135223.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X11

    9. XM_063279152.1 → XP_063135222.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X8

    10. XM_006256205.5 → XP_006256267.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X4

      UniProtKB/TrEMBL
      D3Z9I3
      Conserved Domains (5) summary
      cd00160
      Location:105 → 289
      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:540 → 641
      PH2_FGD1-4; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia proteins pleckstrin homology (PH) domain, C-terminus
      cd13386
      Location:321 → 428
      PH1_FGD2; FYVE, RhoGEF and PH domain containing/faciogenital dysplasia protein 2, N-terminal Pleckstrin homology (PH) domain
      cd15741
      Location:454 → 518
      FYVE_FGD1_2_4; FYVE domain found in FYVE, RhoGEF and PH domain-containing protein facio-genital dysplasia FGD1, FGD2, FGD4
      pfam00169
      Location:321 → 418
      PH; PH domain

    11. XM_017601651.3 → XP_017457140.1  FYVE, RhoGEF and PH domain-containing protein 2 isoform X9

      UniProtKB/TrEMBL
      A6JJU9
    Nucleotide Protein Strain
    Heading Accession and Version

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