Rapgef3 Rap guanine nucleotide exchange factor 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rapgef3provided by RGD
Official Full Name: Rap guanine nucleotide exchange factor 3provided by RGD
Primary source: RGD:621869
See related: EnsemblRapid:ENSRNOG00000059961 AllianceGenome:RGD:621869
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
Also known as: Epac
Summary: Enables cAMP binding activity and transmembrane transporter binding activity. Involved in several processes, including nervous system development; positive regulation of cation transmembrane transport; and positive regulation of macromolecule metabolic process. Located in several cellular components, including basolateral part of cell; brush border membrane; and distal axon. Orthologous to human RAPGEF3 (Rap guanine nucleotide exchange factor 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Kidney (RPKM 146.5), Adrenal (RPKM 124.4) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 7q36

Exon count:: 30

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	7	NC_086025.1 (130754883..130777303, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	7	NC_051342.1 (128875772..128898203, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	7	NC_005106.4 (139232263..139254668, complement)

Chromosome 7 - NC_086025.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

EPAC1 and 2 inhibit K[+] currents via PLC/PKC and NOS/PKG pathways in rat ventricular cardiomyocytes.
Title: EPAC1 and 2 inhibit K(+) currents via PLC/PKC and NOS/PKG pathways in rat ventricular cardiomyocytes.
Activation of Epac in the BLA disrupts reconsolidation and attenuates heroin-seeking behaviour.
Title: Activation of Epac in the BLA disrupts reconsolidation and attenuates heroin-seeking behaviour.
Unveiling IL-33/ST2 Pathway Unbalance in Cardiac Remodeling Due to Obesity in Zucker Fatty Rats.
Title: Unveiling IL-33/ST2 Pathway Unbalance in Cardiac Remodeling Due to Obesity in Zucker Fatty Rats.
Unraveling the role of Epac1-SOCS3 signaling in the development of neonatal-CRD-induced visceral hypersensitivity in rats.
Title: Unraveling the role of Epac1-SOCS3 signaling in the development of neonatal-CRD-induced visceral hypersensitivity in rats.
stimulation of Epac proteins could have either beneficial or deleterious effects depending on the steady-state Ca(2+) levels at which the myocyte is functioning, favoring the prevailing mechanism of sarcoplasmic reticulum Ca(2+) handling (uptake vs. leak) in the different situations.
Title: Early effects of Epac depend on the fine-tuning of the sarcoplasmic reticulum Ca(2+) handling in cardiomyocytes.
Activation of Epac1-Akt signaling pathway.
Title: Curcumin pretreatment protects against hypoxia/reoxgenation injury via improvement of mitochondrial function, destabilization of HIF-1α and activation of Epac1-Akt pathway in rat bone marrow mesenchymal stem cells.
Epac1/Epac2 and CaM can play a key role in arrhythmogenesis development under conditions of alcoholic cardiomyopathy.
Title: Epac Proteins and Calmodulin as Possible Arrhythmogenesis Trigger in Alcoholic Cardiomyopathy.
Epac and its downstream pathway may be a novel target for treating cardiac dysfunction in endotoxemia.
Title: Epac activation inhibits IL-6-induced cardiac myocyte dysfunction.
Rap guanine nucleotide exchange factors Epac1 and Epac2 induces the phosphorylation of extracellular signal-regulated kinases ERK1/2 in pituitary tumor GH3 cells.
Title: Exchange proteins directly activated by cAMP induce the proliferation of rat anterior pituitary GH3 cells via the activation of extracellular signal-regulated kinase.
Transactivation of protein kinase C-[epsilon] during inflammatory neuropathic pain, and nociceptor priming is mediated by the cAMP sensor exchange protein directly activated by cAMP (EPAC).
Title: Acquired Exchange Protein Directly Activated by Cyclic Adenosine Monophosphate Activity Induced by p38 Mitogen-activated Protein Kinase in Primary Afferent Neurons Contributes to Sustaining Postincisional Nociception.

Submit: New GeneRIF Correction See all GeneRIFs (62)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables cAMP binding	IPI Inferred from Physical Interaction more info	PubMed
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 guanyl-nucleotide exchange factor activity	ISO Inferred from Sequence Orthology more info
enables guanyl-nucleotide exchange factor activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein domain specific binding	IEA Inferred from Electronic Annotation more info
enables protein domain specific binding	ISO Inferred from Sequence Orthology more info
enables transmembrane transporter binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in Rap protein signal transduction	IEA Inferred from Electronic Annotation more info
involved_in Rap protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in Rap protein signal transduction	ISS Inferred from Sequence or Structural Similarity more info
involved_in Ras protein signal transduction	IBA Inferred from Biological aspect of Ancestor more info
involved_in angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in artery development	IEP Inferred from Expression Pattern more info	PubMed
involved_in associative learning	IEA Inferred from Electronic Annotation more info
involved_in associative learning	ISO Inferred from Sequence Orthology more info
involved_in cellular response to L-dopa	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to cAMP	IEA Inferred from Electronic Annotation more info
involved_in cellular response to cAMP	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cAMP	ISS Inferred from Sequence or Structural Similarity more info
involved_in cellular response to organic cyclic compound	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to transforming growth factor beta stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to xenobiotic stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in dorsal root ganglion development	IEP Inferred from Expression Pattern more info	PubMed
involved_in establishment of endothelial barrier	IEA Inferred from Electronic Annotation more info
involved_in establishment of endothelial barrier	ISO Inferred from Sequence Orthology more info
involved_in establishment of endothelial barrier	ISS Inferred from Sequence or Structural Similarity more info
involved_in intracellular signal transduction	ISO Inferred from Sequence Orthology more info
involved_in liver regeneration	IEP Inferred from Expression Pattern more info	PubMed
involved_in negative regulation of cardiac muscle cell apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of collagen biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of syncytium formation by plasma membrane fusion	IEA Inferred from Electronic Annotation more info
involved_in negative regulation of syncytium formation by plasma membrane fusion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of GTPase activity	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of GTPase activity	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of angiogenesis	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of angiogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of calcium ion transmembrane transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of cell size	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of potassium ion import across plasma membrane	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of protein export from nucleus	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of protein export from nucleus	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein phosphorylation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of smooth muscle cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of stress fiber assembly	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of stress fiber assembly	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of stress fiber assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of syncytium formation by plasma membrane fusion	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of syncytium formation by plasma membrane fusion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of actin cytoskeleton organization	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of actin cytoskeleton organization	ISO Inferred from Sequence Orthology more info
involved_in regulation of actin cytoskeleton organization	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	IEA Inferred from Electronic Annotation more info
involved_in regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in response to nicotine	IEP Inferred from Expression Pattern more info	PubMed
involved_in small GTPase-mediated signal transduction	IEA Inferred from Electronic Annotation more info
involved_in spinal cord development	IEP Inferred from Expression Pattern more info	PubMed

Component	Evidence Code	Pubs
located_in apical part of cell	IDA Inferred from Direct Assay more info	PubMed
located_in axon terminus	IDA Inferred from Direct Assay more info	PubMed
located_in basal plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in basolateral part of cell	IDA Inferred from Direct Assay more info	PubMed
located_in brush border membrane	IDA Inferred from Direct Assay more info	PubMed
located_in cortical actin cytoskeleton	IDA Inferred from Direct Assay more info	PubMed
located_in cortical actin cytoskeleton	IEA Inferred from Electronic Annotation more info
located_in cortical actin cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in filopodium	IDA Inferred from Direct Assay more info	PubMed
located_in filopodium	IEA Inferred from Electronic Annotation more info
located_in filopodium	ISO Inferred from Sequence Orthology more info
located_in growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in lamellipodium	IDA Inferred from Direct Assay more info	PubMed
located_in lamellipodium	IEA Inferred from Electronic Annotation more info
located_in lamellipodium	ISO Inferred from Sequence Orthology more info
located_in microvillus	IDA Inferred from Direct Assay more info	PubMed
located_in microvillus	IEA Inferred from Electronic Annotation more info
located_in microvillus	ISO Inferred from Sequence Orthology more info
located_in neuronal cell body	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in photoreceptor cell terminal bouton	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in ribbon synapse	IDA Inferred from Direct Assay more info	PubMed
located_in rod bipolar cell terminal bouton	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: rap guanine nucleotide exchange factor 3

Names: Rap guanine nucleotide exchange factor (GEF) 3; cAMP-GEFI; cAMP-regulated guanine nucleotide exchange factor I (cAMP-GEFI); epac 1; exchange factor directly activated by cAMP 1; exchange protein directly activated by cAMP 1

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)

NM_021690.2 → NP_067722.2 rap guanine nucleotide exchange factor 3

Status: PROVISIONAL

Source sequence(s)

JAXUCZ010000007

UniProtKB/TrEMBL

A0A0G2K3G8, Q3B7C8

Related

ENSRNOP00000076511.1, ENSRNOT00000096691.2

Conserved Domains (4) summary

smart00147
Location:619 → 884

RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases

cd00038
Location:205 → 314

CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...

cd04437
Location:58 → 181

DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

pfam00618
Location:345 → 454

RasGEF_N; RasGEF N-terminal motif

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

NC_086025.1 Reference GRCr8

Range

130754883..130777303 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063264182.1 → XP_063120252.1 rap guanine nucleotide exchange factor 3 isoform X3

Related

ENSRNOP00000072633.3, ENSRNOT00000078644.3
XM_039079829.2 → XP_038935757.1 rap guanine nucleotide exchange factor 3 isoform X2

UniProtKB/Swiss-Prot

Q9Z1C8

Conserved Domains (4) summary

smart00147
Location:707 → 972

RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases

cd00038
Location:247 → 356

CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...

cd04437
Location:100 → 223

DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

pfam00618
Location:387 → 496

RasGEF_N; RasGEF N-terminal motif
XM_039079828.2 → XP_038935756.1 rap guanine nucleotide exchange factor 3 isoform X1

UniProtKB/TrEMBL

A0A8I5Y034

Conserved Domains (4) summary

smart00147
Location:738 → 1003

RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases

cd00038
Location:278 → 387

CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...

cd04437
Location:131 → 254

DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

pfam00618
Location:418 → 527

RasGEF_N; RasGEF N-terminal motif
XM_039079830.2 → XP_038935758.1 rap guanine nucleotide exchange factor 3 isoform X4

UniProtKB/TrEMBL

A0A0G2K3G8

Conserved Domains (4) summary

smart00147
Location:641 → 906

RasGEF; Guanine nucleotide exchange factor for Ras-like small GTPases

cd00038
Location:181 → 290

CAP_ED; effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO ...

cd04437
Location:34 → 157

DEP_Epac; DEP (Dishevelled, Egl-10, and Pleckstrin) domain found in Epac-like proteins. Epac (exchange proteins directly activated by cAMP) proteins are GEFs (guanine-nucleotide-exchange factors) for the small GTPases, Rap1 and Rap2. They are directly regulated by ...

pfam00618
Location:321 → 430

RasGEF_N; RasGEF N-terminal motif