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Aliases for FGD5 Gene

Aliases for FGD5 Gene

  • FYVE, RhoGEF And PH Domain Containing 5 2 3 5
  • Zinc Finger FYVE Domain-Containing Protein 23 3 4
  • ZFYVE23 3 4
  • FYVE, RhoGEF And PH Domain-Containing Protein 5 3

External Ids for FGD5 Gene

Previous GeneCards Identifiers for FGD5 Gene

  • GC03P014836
  • GC03P014835
  • GC03P014826

Summaries for FGD5 Gene

GeneCards Summary for FGD5 Gene

FGD5 (FYVE, RhoGEF And PH Domain Containing 5) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include guanyl-nucleotide exchange factor activity and small GTPase binding. An important paralog of this gene is FGD6.

UniProtKB/Swiss-Prot for FGD5 Gene

  • Activates CDC42, a member of the Ras-like family of Rho- and Rac proteins, by exchanging bound GDP for free GTP. Mediates VEGF-induced CDC42 activation. May regulate proangiogenic action of VEGF in vascular endothelial cells, including network formation, directional movement and proliferation. May play a role in regulating the actin cytoskeleton and cell shape.

Additional gene information for FGD5 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for FGD5 Gene

Genomics for FGD5 Gene

GeneHancer (GH) Regulatory Elements for FGD5 Gene

Promoters and enhancers for FGD5 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH03I014809 Promoter/Enhancer 1.5 Ensembl ENCODE dbSUPER 550.8 +0.5 475 2.8 ZNF335 USF1 POLR2A ZSCAN4 ZFP36 PRDM10 ZBTB26 EZH2 FGD5 LINC02011
GH03I015097 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 9.9 +288.0 287982 2.4 CLOCK MLX ZFP64 DMAP1 YBX1 YY1 SLC30A9 ZNF213 E2F8 ZNF416 RBSN GC03M015143 NR2C2 CCDC174 SH3BP5-AS1 CAPN7 ENSG00000228242 XPC MRPS25 HACL1
GH03I014450 Enhancer 1.6 FANTOM5 Ensembl ENCODE dbSUPER 9.9 -357.6 -357555 5 FOXA2 ARNT ARID4B SIN3A FEZF1 GLI4 ZNF48 ZNF121 POLR2B GLIS2 SH3BP5-AS1 CCDC174 SLC6A6 CAPN7 NR2C2 ENSG00000228242 XPC METTL6 FGD5 TMEM43
GH03I014846 Enhancer 1.2 Ensembl ENCODE dbSUPER 12.9 +36.9 36887 1.7 HDAC1 ARNT NFRKB ZBTB40 ETS1 ATF7 CREM EGR2 USF2 ELF1 FGD5 FGD5-AS1 PIR49239 LOC105376963
GH03I014885 Enhancer 0.9 Ensembl ENCODE dbSUPER 12.4 +74.5 74458 0.6 ZNF217 E2F1 GATA3 TARDBP TCF7L2 FGD5 C3orf20 CCDC174 ENSG00000235629 FGD5-AS1 LOC105376963 PIR49239
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around FGD5 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the FGD5 gene promoter:

Genomic Locations for FGD5 Gene

Genomic Locations for FGD5 Gene
chr3:14,810,853-14,934,565
(GRCh38/hg38)
Size:
123,713 bases
Orientation:
Plus strand
chr3:14,860,469-14,976,072
(GRCh37/hg19)

Genomic View for FGD5 Gene

Genes around FGD5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
FGD5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for FGD5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for FGD5 Gene

Proteins for FGD5 Gene

  • Protein details for FGD5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q6ZNL6-FGD5_HUMAN
    Recommended name:
    FYVE, RhoGEF and PH domain-containing protein 5
    Protein Accession:
    Q6ZNL6
    Secondary Accessions:
    • B3KVQ3
    • Q6MZY1
    • Q7Z303
    • Q8IYP3
    • Q8N861
    • Q8N8G4

    Protein attributes for FGD5 Gene

    Size:
    1462 amino acids
    Molecular mass:
    159891 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC04878.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAC04989.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=BAC85128.1; Type=Frameshift; Positions=79; Evidence={ECO:0000305}; Sequence=CAD98090.1; Type=Erroneous termination; Positions=1279; Note=Translated as Lys.; Evidence={ECO:0000305};

    Three dimensional structures from OCA and Proteopedia for FGD5 Gene

    Alternative splice isoforms for FGD5 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for FGD5 Gene

Post-translational modifications for FGD5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for FGD5 Gene

No data available for DME Specific Peptides for FGD5 Gene

Domains & Families for FGD5 Gene

Suggested Antigen Peptide Sequences for FGD5 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with FGD5: view

No data available for UniProtKB/Swiss-Prot for FGD5 Gene

Function for FGD5 Gene

Molecular function for FGD5 Gene

UniProtKB/Swiss-Prot Function:
Activates CDC42, a member of the Ras-like family of Rho- and Rac proteins, by exchanging bound GDP for free GTP. Mediates VEGF-induced CDC42 activation. May regulate proangiogenic action of VEGF in vascular endothelial cells, including network formation, directional movement and proliferation. May play a role in regulating the actin cytoskeleton and cell shape.

Phenotypes From GWAS Catalog for FGD5 Gene

Gene Ontology (GO) - Molecular Function for FGD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005085 guanyl-nucleotide exchange factor activity ISS --
GO:0005089 Rho guanyl-nucleotide exchange factor activity IEA --
GO:0005515 protein binding IPI 23455924
GO:0031267 small GTPase binding ISS --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with FGD5: view
genes like me logo Genes that share phenotypes with FGD5: view

Animal Models for FGD5 Gene

MGI Knock Outs for FGD5:

miRNA for FGD5 Gene

miRTarBase miRNAs that target FGD5

Clone Products

  • Addgene plasmids for FGD5

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for FGD5 Gene

Localization for FGD5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for FGD5 Gene

Cytoplasm, cytoskeleton. Cell projection, ruffle membrane. Endoplasmic reticulum. Golgi apparatus. Early endosome. Note=In peripheral membrane ruffles, colocolizes with F-actin. In confluent HUVECs, detected at cell-cell-contact sites where it colocalizes with vascular endothelial cadherin/CDH5.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for FGD5 gene
Compartment Confidence
golgi apparatus 4
endosome 4
plasma membrane 3
cytoskeleton 3
nucleus 3
endoplasmic reticulum 3
cytosol 2

Gene Ontology (GO) - Cellular Components for FGD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001726 ruffle ISS --
GO:0005737 cytoplasm ISS --
GO:0005768 endosome IEA --
GO:0005769 early endosome IEA --
GO:0005783 endoplasmic reticulum IEA --
genes like me logo Genes that share ontologies with FGD5: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for FGD5 Gene

Pathways & Interactions for FGD5 Gene

No Data Available

Interacting Proteins for FGD5 Gene

Gene Ontology (GO) - Biological Process for FGD5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007010 cytoskeleton organization ISS --
GO:0008360 regulation of cell shape ISS --
GO:0030036 actin cytoskeleton organization ISS --
GO:0035023 regulation of Rho protein signal transduction IEA --
GO:0043087 regulation of GTPase activity ISS --
genes like me logo Genes that share ontologies with FGD5: view

No data available for Pathways by source and SIGNOR curated interactions for FGD5 Gene

Drugs & Compounds for FGD5 Gene

(1) Drugs for FGD5 Gene - From: HMDB

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Guanosine triphosphate Experimental Pharma 0
genes like me logo Genes that share compounds with FGD5: view

Transcripts for FGD5 Gene

Unigene Clusters for FGD5 Gene

FYVE, RhoGEF and PH domain containing 5:
Representative Sequences:

Clone Products

  • Addgene plasmids for FGD5

Alternative Splicing Database (ASD) splice patterns (SP) for FGD5 Gene

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7 ^ 8 ^ 9a · 9b ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20 ^ 21 ^ 22a · 22b
SP1: - -
SP2: -
SP3:
SP4: - - - -

Relevant External Links for FGD5 Gene

GeneLoc Exon Structure for
FGD5
ECgene alternative splicing isoforms for
FGD5

Expression for FGD5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for FGD5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for FGD5 Gene

This gene is overexpressed in Bone (41.1), Placenta (12.4), and Spleen (7.4).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for FGD5 Gene



NURSA nuclear receptor signaling pathways regulating expression of FGD5 Gene:

FGD5

SOURCE GeneReport for Unigene cluster for FGD5 Gene:

Hs.412406

mRNA Expression by UniProt/SwissProt for FGD5 Gene:

Q6ZNL6-FGD5_HUMAN
Tissue specificity: Expressed in endothelial cells (at protein level).

Evidence on tissue expression from TISSUES for FGD5 Gene

  • Nervous system(4.9)
  • Spleen(4.3)
genes like me logo Genes that share expression patterns with FGD5: view

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for FGD5 Gene

Orthologs for FGD5 Gene

This gene was present in the common ancestor of chordates.

Orthologs for FGD5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia FGD5 33 34
  • 99.36 (n)
dog
(Canis familiaris)
Mammalia FGD5 33 34
  • 83.52 (n)
cow
(Bos Taurus)
Mammalia FGD5 33 34
  • 79.36 (n)
mouse
(Mus musculus)
Mammalia Fgd5 33 16 34
  • 77.97 (n)
rat
(Rattus norvegicus)
Mammalia Fgd5 33
  • 77.25 (n)
oppossum
(Monodelphis domestica)
Mammalia FGD5 34
  • 59 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia FGD5 34
  • 57 (a)
OneToOne
chicken
(Gallus gallus)
Aves FGD5 33 34
  • 68.03 (n)
lizard
(Anolis carolinensis)
Reptilia FGD5 34
  • 70 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia fgd5 33
  • 63.92 (n)
zebrafish
(Danio rerio)
Actinopterygii fgd5b 34
  • 53 (a)
OneToMany
fgd5a 34
  • 35 (a)
OneToMany
Species where no ortholog for FGD5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for FGD5 Gene

ENSEMBL:
Gene Tree for FGD5 (if available)
TreeFam:
Gene Tree for FGD5 (if available)

Paralogs for FGD5 Gene

Paralogs for FGD5 Gene

(2) SIMAP similar genes for FGD5 Gene using alignment to 5 proteins:

Pseudogenes.org Pseudogenes for FGD5 Gene

genes like me logo Genes that share paralogs with FGD5: view

Variants for FGD5 Gene

Sequence variations from dbSNP and Humsavar for FGD5 Gene

SNP ID Clin Chr 03 pos Variation AA Info Type
rs1000025326 -- 14,866,222(+) C/T intron_variant
rs1000120644 -- 14,896,961(+) A/G intron_variant
rs1000134738 -- 14,821,974(+) C/T intron_variant
rs1000136442 -- 14,819,517(+) G/T coding_sequence_variant, missense_variant
rs1000145695 -- 14,833,077(+) G/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for FGD5 Gene

Variant ID Type Subtype PubMed ID
esv2724945 CNV deletion 23290073
esv2724960 CNV deletion 23290073
esv2759130 CNV gain 17122850
esv3595377 CNV gain 21293372
esv3893664 CNV loss 25118596
nsv10252 CNV gain 18304495
nsv460452 CNV loss 19166990
nsv519602 CNV loss 19592680
nsv589778 CNV loss 21841781
nsv589779 CNV loss 21841781
nsv589780 CNV loss 21841781
nsv834620 CNV gain 17160897

Variation tolerance for FGD5 Gene

Residual Variation Intolerance Score: 24% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 7.25; 81.16% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for FGD5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
FGD5

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for FGD5 Gene

Disorders for FGD5 Gene

Additional Disease Information for FGD5

No disorders were found for FGD5 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for FGD5 Gene

Publications for FGD5 Gene

  1. FGD5 mediates proangiogenic action of vascular endothelial growth factor in human vascular endothelial cells. (PMID: 22328776) Kurogane Y … Rikitake Y (Arteriosclerosis, thrombosis, and vascular biology 2012) 3 4 58
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 58
  3. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4 58
  4. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. (PMID: 10737800) Dias Neto E … Simpson AJ (Proceedings of the National Academy of Sciences of the United States of America 2000) 3 4 58
  5. FGD5 Regulates VEGF Receptor-2 Coupling to PI3 Kinase and Receptor Recycling. (PMID: 29051140) Farhan MA … Murray AG (Arteriosclerosis, thrombosis, and vascular biology 2017) 3 58

Products for FGD5 Gene

  • Addgene plasmids for FGD5

Sources for FGD5 Gene

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