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Aliases for RAPGEF3 Gene

Aliases for RAPGEF3 Gene

  • Rap Guanine Nucleotide Exchange Factor (GEF) 3 2 3
  • Exchange Protein Directly Activated By CAMP 1 2 3 4
  • EPAC 3 4 6
  • Rap1 Guanine-Nucleotide-Exchange Factor Directly Activated By CAMP 3 4
  • CAMP-Regulated Guanine Nucleotide Exchange Factor I 3 4
  • Exchange Factor Directly Activated By CAMP 1 3 4
  • CAMP-GEFI 3 4
  • EPAC 1 3 4
  • EPAC1 3 4
  • RAP Guanine-Nucleotide-Exchange Factor (GEF) 3 2
  • Rap Guanine Nucleotide Exchange Factor 3 3
  • 9330170P05Rik 3
  • HSU79275 3
  • Bcm910 3
  • CGEF1 4

External Ids for RAPGEF3 Gene

Summaries for RAPGEF3 Gene

GeneCards Summary for RAPGEF3 Gene

RAPGEF3 (Rap Guanine Nucleotide Exchange Factor (GEF) 3) is a Protein Coding gene. Among its related pathways are Ras signaling pathway and Signaling by GPCR. GO annotations related to this gene include guanyl-nucleotide exchange factor activity and cAMP binding. An important paralog of this gene is RASGEF1B.

UniProtKB/Swiss-Prot for RAPGEF3 Gene

  • Guanine nucleotide exchange factor (GEF) for RAP1A and RAP2A small GTPases that is activated by binding cAMP. Through simultaneous binding of PDE3B to RAPGEF3 and PIK3R6 is assembled in a signaling complex in which it activates the PI3K gamma complex and which is involved in angiogenesis. Plays a role in the modulation of the cAMP-induced dynamic control of endothelial barrier function through a pathway that is independent on Rho-mediated signaling. Required for the actin rearrangement at cell-cell junctions, such as stress fibers and junctional actin.

Tocris Summary for RAPGEF3 Gene

  • GTPases are a group of enzymes that catalyze hydrolysis of the gamma phosphate bond in guanine triphosphate (GTP) to form guanine diphosphate (GDP). Mg2+ is essential for catalytic activity. GTPases are often coupled to G proteins and have essential roles in signal transduction, protein synthesis and translocation, control of cell growth and differentiation and vesicular transport regulation.

Gene Wiki entry for RAPGEF3 Gene

No data available for Entrez Gene Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RAPGEF3 Gene

Genomics for RAPGEF3 Gene

Genomic Location for RAPGEF3 Gene

Start:
47,734,670 bp from pter
End:
47,771,040 bp from pter
Size:
36,371 bases
Orientation:
Minus strand

Genomic View for RAPGEF3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RAPGEF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RAPGEF3 Gene

Regulatory Elements for RAPGEF3 Gene

Transcription factor binding sites by QIAGEN in the RAPGEF3 gene promoter:

Proteins for RAPGEF3 Gene

  • Protein details for RAPGEF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O95398-RPGF3_HUMAN
    Recommended name:
    Rap guanine nucleotide exchange factor 3
    Protein Accession:
    O95398
    Secondary Accessions:
    • A8K2G5
    • E7EQC8
    • O95634
    • Q8WVN0

    Protein attributes for RAPGEF3 Gene

    Size:
    923 amino acids
    Molecular mass:
    103751 Da
    Quaternary structure:
    • Interacts with PDE3B.
    SequenceCaution:
    • Sequence=AAD02890.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305}; Sequence=AAD12740.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

    Alternative splice isoforms for RAPGEF3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for RAPGEF3 Gene

Proteomics data for RAPGEF3 Gene at MOPED

Post-translational modifications for RAPGEF3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for RAPGEF3 Gene

Domains for RAPGEF3 Gene

Gene Families for RAPGEF3 Gene

Graphical View of Domain Structure for InterPro Entry

O95398

UniProtKB/Swiss-Prot:

RPGF3_HUMAN
Domain:
  • The DEP domain is involved in membrane localization independent from regulation by cAMP.:
    • O95398
  • Contains 1 cyclic nucleotide-binding domain.:
    • O95398
  • Contains 1 DEP domain.:
    • O95398
  • Contains 1 N-terminal Ras-GEF domain.:
    • O95398
  • Contains 1 Ras-GEF domain.:
    • O95398
genes like me logo Genes that share domains with RAPGEF3: view

Function for RAPGEF3 Gene

Molecular function for RAPGEF3 Gene

UniProtKB/Swiss-Prot Function: Guanine nucleotide exchange factor (GEF) for RAP1A and RAP2A small GTPases that is activated by binding cAMP. Through simultaneous binding of PDE3B to RAPGEF3 and PIK3R6 is assembled in a signaling complex in which it activates the PI3K gamma complex and which is involved in angiogenesis. Plays a role in the modulation of the cAMP-induced dynamic control of endothelial barrier function through a pathway that is independent on Rho-mediated signaling. Required for the actin rearrangement at cell-cell junctions, such as stress fibers and junctional actin.

Gene Ontology (GO) - Molecular Function for RAPGEF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005085 guanyl-nucleotide exchange factor activity TAS 9853756
GO:0005515 protein binding IPI 21393242
GO:0008603 cAMP-dependent protein kinase regulator activity IEA --
GO:0017034 Rap guanyl-nucleotide exchange factor activity IMP 21840392
GO:0030552 cAMP binding IEA --
genes like me logo Genes that share ontologies with RAPGEF3: view
genes like me logo Genes that share phenotypes with RAPGEF3: view

Animal Models for RAPGEF3 Gene

MGI Knock Outs for RAPGEF3:

miRNA for RAPGEF3 Gene

miRTarBase miRNAs that target RAPGEF3

No data available for Enzyme Numbers (IUBMB) , Transcription Factor Targeting and HOMER Transcription for RAPGEF3 Gene

Localization for RAPGEF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for RAPGEF3 Gene

Endomembrane system.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RAPGEF3 Gene COMPARTMENTS Subcellular localization image for RAPGEF3 gene
Compartment Confidence
plasma membrane 4
cytosol 3
nucleus 2
cytoskeleton 1

Gene Ontology (GO) - Cellular Components for RAPGEF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular --
GO:0005886 plasma membrane TAS --
GO:0005952 cAMP-dependent protein kinase complex IEA --
GO:0012505 endomembrane system IEA --
GO:0016020 membrane TAS 10777494
genes like me logo Genes that share ontologies with RAPGEF3: view

Pathways for RAPGEF3 Gene

genes like me logo Genes that share pathways with RAPGEF3: view

Gene Ontology (GO) - Biological Process for RAPGEF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001525 angiogenesis IEA --
GO:0006112 energy reserve metabolic process TAS --
GO:0007165 signal transduction TAS 9853756
GO:0007264 small GTPase mediated signal transduction --
GO:0007596 blood coagulation TAS --
genes like me logo Genes that share ontologies with RAPGEF3: view

Compounds for RAPGEF3 Gene

(5) Tocris Compounds for RAPGEF3 Gene

Compound Action Cas Number
8CPT-2Me-cAMP, sodium salt Selective Epac activator [510774-50-2]
Dynamin inhibitory peptide, myristoylated (control) Control peptide version of dynamin inhibitory peptide, myristoylated (Cat. No. 1775)
Dynasore Non-competitive dynamin inhibitor [304448-55-3]
HJC 0350 Selective Epac2 inhibitor [885434-70-8]
ML 141 Selective inhibitor of Cdc42 Rho family GTPase [71203-35-5]

(4) HMDB Compounds for RAPGEF3 Gene

Compound Synonyms Cas Number PubMed IDs
Cyclic AMP
  • Cyclic AMP
60-92-4
Guanosine diphosphate
  • 5'-GDP
146-91-8
Guanosine monophosphate
  • 5'-GMP
85-32-5
Guanosine triphosphate
  • 5'-GTP
86-01-1

(15) Novoseek inferred chemical compound relationships for RAPGEF3 Gene

Compound -log(P) Hits PubMed IDs
cyclic amp 70 41
forskolin 69.3 10
ryanodine 41.3 1
guanine 38.3 3
calcium 37 14
genes like me logo Genes that share compounds with RAPGEF3: view

Transcripts for RAPGEF3 Gene

Unigene Clusters for RAPGEF3 Gene

Rap guanine nucleotide exchange factor (GEF) 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RAPGEF3 Gene

ExUns: 1a · 1b ^ 2 ^ 3a · 3b ^ 4 ^ 5 ^ 6 ^ 7a · 7b · 7c ^ 8 ^ 9 ^ 10a · 10b ^ 11 ^ 12a · 12b ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18a · 18b ^ 19 ^
SP1: - - - -
SP2: - - -
SP3: - - - - - - - -
SP4:
SP5:
SP6: - -
SP7: -
SP8:
SP9:
SP10:
SP11:

ExUns: 20a · 20b · 20c ^ 21 ^ 22 ^ 23 ^ 24 ^ 25 ^ 26 ^ 27 ^ 28a · 28b ^ 29a · 29b · 29c · 29d
SP1: - -
SP2: - - -
SP3: - -
SP4: - -
SP5:
SP6:
SP7:
SP8:
SP9: - -
SP10:
SP11: -

Relevant External Links for RAPGEF3 Gene

GeneLoc Exon Structure for
RAPGEF3
ECgene alternative splicing isoforms for
RAPGEF3

Expression for RAPGEF3 Gene

mRNA expression in normal human tissues for RAPGEF3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, and MOPED for RAPGEF3 Gene

SOURCE GeneReport for Unigene cluster for RAPGEF3 Gene Hs.8578

mRNA Expression by UniProt/SwissProt for RAPGEF3 Gene

O95398-RPGF3_HUMAN
Tissue specificity: Widely expressed with highest levels in adult kidney, heart, thyroid and brain, and fetal kidney.
genes like me logo Genes that share expressions with RAPGEF3: view

No data available for mRNA differential expression in normal tissues for RAPGEF3 Gene

Orthologs for RAPGEF3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RAPGEF3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia RAPGEF3 35
  • 99.75 (n)
  • 99.78 (a)
RAPGEF3 36
  • 100 (a)
OneToOne
cow
(Bos Taurus)
Mammalia RAPGEF3 35
  • 90.86 (n)
  • 93.72 (a)
RAPGEF3 36
  • 94 (a)
OneToOne
dog
(Canis familiaris)
Mammalia RAPGEF3 35
  • 91.83 (n)
  • 94.55 (a)
RAPGEF3 36
  • 94 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Rapgef3 35
  • 87.97 (n)
  • 91.01 (a)
Rapgef3 16
Rapgef3 36
  • 90 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Rapgef3 35
  • 87.48 (n)
  • 91.15 (a)
chicken
(Gallus gallus)
Aves RAPGEF3 35
  • 70.73 (n)
  • 69.2 (a)
RAPGEF3 36
  • 66 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia RAPGEF3 36
  • 65 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia rapgef3 35
  • 63.69 (n)
  • 60.76 (a)
zebrafish
(Danio rerio)
Actinopterygii LOC101886094 35
  • 60.82 (n)
  • 57.41 (a)
rapgef3 36
  • 54 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta Epac 36
  • 35 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea epac-1 36
  • 28 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 38 (a)
OneToMany
Species with no ortholog for RAPGEF3:
  • 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)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • 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)

Evolution for RAPGEF3 Gene

ENSEMBL:
Gene Tree for RAPGEF3 (if available)
TreeFam:
Gene Tree for RAPGEF3 (if available)

Paralogs for RAPGEF3 Gene

genes like me logo Genes that share paralogs with RAPGEF3: view

Variants for RAPGEF3 Gene

Sequence variations from dbSNP and Humsavar for RAPGEF3 Gene

SNP ID Clin Chr 12 pos Sequence Context AA Info Type MAF
rs10750 -- 47,737,343(+) TCCTT(A/G)GCCTT utr-variant-3-prime
rs734706 -- 47,748,368(-) TCTGA(C/T)GTCAC intron-variant
rs757279 -- 47,750,460(-) CACAG(G/T)TCACA intron-variant, upstream-variant-2KB
rs757280 -- 47,749,577(-) GCGGC(A/G)GGGGC intron-variant, upstream-variant-2KB
rs757281 -- 47,748,635(-) CTAAT(A/C/G)GAGAA intron-variant, upstream-variant-2KB

Structural Variations from Database of Genomic Variants (DGV) for RAPGEF3 Gene

Variant ID Type Subtype PubMed ID
nsv470289 CNV Gain 18288195
nsv696 CNV Insertion 18451855
dgv94n21 CNV Loss 19592680
nsv899059 CNV Loss 21882294
nsv518315 CNV Loss 19592680

Relevant External Links for RAPGEF3 Gene

HapMap Linkage Disequilibrium report
RAPGEF3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RAPGEF3 Gene

Disorders for RAPGEF3 Gene

(4) Novoseek inferred disease relationships for RAPGEF3 Gene

Disease -log(P) Hits PubMed IDs
hypertrophy 6.72 3
inflammation 0 2
tumors 0 1
alzheimers disease 0 1

Relevant External Links for RAPGEF3

Genetic Association Database (GAD)
RAPGEF3
Human Genome Epidemiology (HuGE) Navigator
RAPGEF3
genes like me logo Genes that share disorders with RAPGEF3: view

No data available for UniProtKB/Swiss-Prot for RAPGEF3 Gene

Publications for RAPGEF3 Gene

  1. Epac is a Rap1 guanine-nucleotide-exchange factor directly activated by cyclic AMP. (PMID: 9853756) de Rooij J. … Bos J.L. (Nature 1998) 3 4 23
  2. Association study of the Epac gene and tobacco smoking and nicotine dependence. (PMID: 15274052) Chen X. … Kendler K.S. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2004) 3 23 48
  3. A family of cAMP-binding proteins that directly activate rap1. (PMID: 9856955) Kawasaki H. … Graybiel A.M. (Science 1998) 2 3 4
  4. Mechanism of regulation of the Epac family of cAMP-dependent RapGEFs. (PMID: 10777494) de Rooij J. … Bos J.L. (J. Biol. Chem. 2000) 2 3 4
  5. Prostaglandin E2 inhibits the proliferation of human gingival fibroblasts via the EP2 receptor and Epac. (PMID: 19582788) Weinberg E. … Weinreb M. (J. Cell. Biochem. 2009) 3 23

Products for RAPGEF3 Gene

Sources for RAPGEF3 Gene

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