Rapgef1 Rap guanine nucleotide exchange factor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rapgef1provided by RGD
Official Full Name: Rap guanine nucleotide exchange factor 1provided by RGD
Primary source: RGD:619793
See related: Ensembl:ENSRNOG00000014316 AllianceGenome:RGD:619793
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: C3g; Grf2; C3G-1; C3G-2
Summary: Predicted to enable guanyl-nucleotide exchange factor activity. Involved in positive regulation of Fc-gamma receptor signaling pathway involved in phagocytosis; positive regulation of neuron projection development; and regulation of MAPK cascade. Located in perinuclear region of cytoplasm and phagocytic vesicle membrane. Part of protein-containing complex. Biomarker of anti-basement membrane glomerulonephritis and mesangial proliferative glomerulonephritis. Orthologous to human RAPGEF1 (Rap guanine nucleotide exchange factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 102.4), Heart (RPKM 94.2) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 3p12

Exon count:: 28

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (33296211..33414119)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (12898349..13016234)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (8189594..8307077)

Chromosome 3 - NC_086021.1 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?

silencing of C3G can increase cell survival inhibition and apoptosis in cardiomyocytes via regulation of p-ERK1/2 and Bax
Title: Silencing of C3G increases cardiomyocyte survival inhibition and apoptosis via regulation of p-ERK1/2 and Bax.
C3G acts as a pro-survival molecule in H9C2 cardiomyocytes by activation of phosphorylated-ERK1/2.
Title: C3G overexpression promotes the survival of rat-derived H9C2 cardiomyocytes by p-ERK1/2.
C3G protein expression exhibits in the myocardium of rats.
Title: Elevated expression of C3G protein in the peri-infarct myocardium of rats.
In mesangioproliferative glomerulonephritis (MPG), C3G is upregulated in glomerular mesangial cells (GMC). Increased C3G may contribute to the resolution stage of MPG by reducing GMC sensitivity to ET-1, modulating cellular motility, and actin dynamics.
Title: Endothelin signaling via guanine exchange factor C3G in renal glomerular mesangial cells.
C3G was overexpressed in accelerated anti-GBM antibody-induced glomerulonephritis and suggest that this modulates glomerular epithelial cell morphology and behavior
Title: C3G overexpression in glomerular epithelial cells during anti-GBM-induced glomerulonephritis.
Rap1 and its exchange factor C3G in mediating Fc gammaR-dependent phagocytosis.
Title: Rap1 activation is required for Fc gamma receptor-dependent phagocytosis.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

UniSTS:224268 (e-PCR)
- UniSTS:224268

Rapgef1 (e-PCR), detects polymorphism
- UniSTS:477295

UniSTS:234364 (e-PCR)
- UniSTS:234364

BF386172 (e-PCR)
- UniSTS:243600

RH129681 (e-PCR)
- UniSTS:212978

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 protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in Rap protein signal transduction	ISO Inferred from Sequence Orthology more info
involved_in Ras protein signal transduction	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of Ras protein signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within blood vessel development	ISO Inferred from Sequence Orthology more info
acts_upstream_of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell-cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in cellular response to cAMP	ISO Inferred from Sequence Orthology more info
involved_in cellular response to nerve growth factor stimulus	ISO Inferred from Sequence Orthology more info
involved_in establishment of endothelial barrier	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of Ras protein signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of canonical Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
involved_in nerve growth factor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of neural precursor cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of phosphatidylinositol 3-kinase/protein kinase B signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within platelet-derived growth factor receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ERK1 and ERK2 cascade	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of Fc receptor mediated stimulatory signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of phagocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of JNK cascade	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of cell junction assembly	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in phagocytic vesicle membrane	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
part_of protein-containing complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: rap guanine nucleotide exchange factor 1

Names: Rap guanine nucleotide exchange factor (GEF) 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_001427397.1 → NP_001414326.1 rap guanine nucleotide exchange factor 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

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_086021.1 Reference GRCr8

Range

33296211..33414119

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039106160.2 → XP_038962088.1 rap guanine nucleotide exchange factor 1 isoform X5

UniProtKB/TrEMBL

F1M8L9

Related

ENSRNOP00000088594.1

Conserved Domains (3) summary

smart00147
Location:1015 → 1244

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

smart00229
Location:867 → 1008

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:217 → 338

PHA03247; large tegument protein UL36; Provisional
XM_063284486.1 → XP_063140556.1 rap guanine nucleotide exchange factor 1 isoform X8
XM_063284494.1 → XP_063140564.1 rap guanine nucleotide exchange factor 1 isoform X27
XM_039106164.2 → XP_038962092.1 rap guanine nucleotide exchange factor 1 isoform X12

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:977 → 1206

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

smart00229
Location:829 → 970

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:179 → 300

PHA03247; large tegument protein UL36; Provisional
XM_063284487.1 → XP_063140557.1 rap guanine nucleotide exchange factor 1 isoform X15
XM_063284489.1 → XP_063140559.1 rap guanine nucleotide exchange factor 1 isoform X18
XM_063284488.1 → XP_063140558.1 rap guanine nucleotide exchange factor 1 isoform X16
XM_063284495.1 → XP_063140565.1 rap guanine nucleotide exchange factor 1 isoform X29
XM_039106157.2 → XP_038962085.1 rap guanine nucleotide exchange factor 1 isoform X1

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:1028 → 1257

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

smart00229
Location:880 → 1021

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 351

PHA03247; large tegument protein UL36; Provisional
XM_039106162.2 → XP_038962090.1 rap guanine nucleotide exchange factor 1 isoform X9

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:996 → 1225

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

smart00229
Location:848 → 989

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 802

PHA03247; large tegument protein UL36; Provisional
XM_039106167.2 → XP_038962095.1 rap guanine nucleotide exchange factor 1 isoform X19

UniProtKB/TrEMBL

A0A8I5ZQV4

Conserved Domains (3) summary

smart00147
Location:910 → 1139

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

smart00229
Location:762 → 903

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 351

PHA03247; large tegument protein UL36; Provisional
XM_039106158.2 → XP_038962086.1 rap guanine nucleotide exchange factor 1 isoform X2

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:1027 → 1256

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

smart00229
Location:879 → 1020

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 351

PHA03247; large tegument protein UL36; Provisional
XM_063284490.1 → XP_063140560.1 rap guanine nucleotide exchange factor 1 isoform X20
XM_039106165.2 → XP_038962093.1 rap guanine nucleotide exchange factor 1 isoform X13

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:976 → 1205

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

smart00229
Location:828 → 969

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 351

PHA03247; large tegument protein UL36; Provisional
XM_063284491.1 → XP_063140561.1 rap guanine nucleotide exchange factor 1 isoform X22
XM_039106168.2 → XP_038962096.1 rap guanine nucleotide exchange factor 1 isoform X23

UniProtKB/TrEMBL

A0A8I5ZRV1

Conserved Domains (3) summary

smart00147
Location:858 → 1087

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

smart00229
Location:710 → 851

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 351

PHA03247; large tegument protein UL36; Provisional
XM_039106159.2 → XP_038962087.1 rap guanine nucleotide exchange factor 1 isoform X4

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:1019 → 1248

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

smart00229
Location:871 → 1012

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:230 → 342

PHA03247; large tegument protein UL36; Provisional
XM_063284492.1 → XP_063140562.1 rap guanine nucleotide exchange factor 1 isoform X24
XM_017592102.3 → XP_017447591.1 rap guanine nucleotide exchange factor 1 isoform X3

UniProtKB/TrEMBL

F1M8L9
XM_008761683.4 → XP_008759905.2 rap guanine nucleotide exchange factor 1 isoform X6

UniProtKB/TrEMBL

F1M8L9
XM_008761684.4 → XP_008759906.2 rap guanine nucleotide exchange factor 1 isoform X11

UniProtKB/TrEMBL

F1M8L9
XM_039106161.2 → XP_038962089.1 rap guanine nucleotide exchange factor 1 isoform X7

UniProtKB/TrEMBL

F1M8L9

Related

ENSRNOP00000057696.5

Conserved Domains (3) summary

smart00147
Location:1012 → 1241

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

smart00229
Location:864 → 1005

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PRK14950
Location:219 → 321

PRK14950; DNA polymerase III subunits gamma and tau; Provisional
XM_017592108.3 → XP_017447597.1 rap guanine nucleotide exchange factor 1 isoform X21

UniProtKB/TrEMBL

A0A8I5ZQV4
XM_006233902.5 → XP_006233964.1 rap guanine nucleotide exchange factor 1 isoform X25

See identical proteins and their annotated locations for XP_006233964.1

UniProtKB/TrEMBL

A0A8I5ZRV1

Related

ENSRNOP00000080887.1

Conserved Domains (2) summary

smart00147
Location:843 → 1072

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

smart00229
Location:695 → 836

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif
XM_039106163.2 → XP_038962091.1 rap guanine nucleotide exchange factor 1 isoform X10

UniProtKB/TrEMBL

F1M8L9

Conserved Domains (3) summary

smart00147
Location:990 → 1219

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

smart00229
Location:842 → 983

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:192 → 313

PHA03247; large tegument protein UL36; Provisional
XM_008761685.4 → XP_008759907.2 rap guanine nucleotide exchange factor 1 isoform X14

UniProtKB/TrEMBL

F1M8L9
XM_008761686.4 → XP_008759908.2 rap guanine nucleotide exchange factor 1 isoform X17

UniProtKB/TrEMBL

F1M8L9
XM_063284493.1 → XP_063140563.1 rap guanine nucleotide exchange factor 1 isoform X26
XM_039106169.2 → XP_038962097.1 rap guanine nucleotide exchange factor 1 isoform X28

UniProtKB/TrEMBL

A0A8I5ZUL6

Related

ENSRNOP00000082703.1

Conserved Domains (4) summary

PLN03209
Location:191 → 429

PLN03209; translocon at the inner envelope of chloroplast subunit 62; Provisional

smart00147
Location:805 → 1034

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

smart00229
Location:657 → 798

RasGEFN; Guanine nucleotide exchange factor for Ras-like GTPases; N-terminal motif

PHA03247
Location:192 → 298

PHA03247; large tegument protein UL36; Provisional