Rap1a RAP1A, member of RAS oncogene family [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Rap1aprovided by RGD
Official Full Name: RAP1A, member of RAS oncogene familyprovided by RGD
Primary source: RGD:1359694
See related: EnsemblRapid:ENSRNOG00000032463 AllianceGenome:RGD:1359694
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: RAP-1A; rap 1A
Summary: Enables GTP binding activity and guanyl-nucleotide exchange factor activity. Involved in several processes, including cellular response to cAMP; positive regulation of cellular component organization; and positive regulation of signal transduction. Located in cytoplasmic vesicle and perinuclear region of cytoplasm. Orthologous to human RAP1A (RAP1A, member of RAS oncogene family). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Heart (RPKM 384.6), Spleen (RPKM 296.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 13

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (195896967..195974851, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (193208631..193286513, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (208193950..208215186, complement)

Chromosome 2 - NC_086020.1 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?

Signaling diversity enabled by Rap1-regulated plasma membrane ERK with distinct temporal dynamics.
Title: Signaling diversity enabled by Rap1-regulated plasma membrane ERK with distinct temporal dynamics.
that RAP1A was a direct target gene of miR-202 in the PC12 cell. RAP1A expression was upregulated in the spinal dorsal horn of bilateral sciatic nerve chronic constriction injury (bCCI)rat.
Title: miR-202 modulates the progression of neuropathic pain through targeting RAP1A.
These findings suggest that TGFbeta1 regulates Rap1, resulting in the suppression of RhoA, activation of and formation of Factin during the migration of hepatic stellate cells.
Title: Rap1 regulates hepatic stellate cell migration through the modulation of RhoA activity in response to TGF‑β1.
Data suggest activation of EPAC1/2 (exchange proteins activated by cAMP) and Rap1 (RAS-related GTP-binding protein 1) in hepatic stellate cells down-regulates proliferation and synthesis of a-smooth muscle actin/collagen I/collagen II in an in vitro model of alcoholic cirrhosis (AC); in AC, expression of EPAC1 is down-regulated but expression of EPAC2 is up-regulated; EPAC1 activation increases GTP-bound (activated) Rap1.
Title: EPAC activation inhibits acetaldehyde-induced activation and proliferation of hepatic stellate cell via Rap1.
Phosphorylation of synaptic GTPase-activating protein (synGAP) by Ca2+/calmodulin-dependent protein kinase II (CaMKII) and cyclin-dependent kinase 5 (CDK5) alters the ratio of its GAP activity toward Ras and Rap GTPases.
Title: Phosphorylation of synaptic GTPase-activating protein (synGAP) by Ca2+/calmodulin-dependent protein kinase II (CaMKII) and cyclin-dependent kinase 5 (CDK5) alters the ratio of its GAP activity toward Ras and Rap GTPases.
cAMP-responsive Rap1 guanine nucleotide exchange factor, Epac, induces smooth muscle relaxation by down-regulation of RhoA activity
Title: The cAMP-responsive Rap1 guanine nucleotide exchange factor, Epac, induces smooth muscle relaxation by down-regulation of RhoA activity.
Activated Rap1A promotes glucose-stimulated insulin secretion, islet cell hypertrophy, and islet cell proliferation, the latter exclusively through mammalian target of rapamycin complex 1
Title: Rap1 promotes multiple pancreatic islet cell functions and signals through mammalian target of rapamycin complex 1 to enhance proliferation.
Rap1 and its exchange factor C3G in mediating Fc gammaR-dependent phagocytosis.
Title: Rap1 activation is required for Fc gamma receptor-dependent phagocytosis.
Rap1, MKK3/6, and p38 MAPK have a role in the induction of mGluR-dependent LTD by directly coupling to receptor trafficking machineries to facilitate the loss of synaptic AMPA receptors
Title: Rap1-induced p38 mitogen-activated protein kinase activation facilitates AMPA receptor trafficking via the GDI.Rab5 complex. Potential role in (S)-3,5-dihydroxyphenylglycene-induced long term depression.
Negative effects of Rap1 are observed in NMDA receptor-mediated synaptic transmission in hippocampal pyramidal neurons.
Title: Possible involvement of Rap1 and Ras in glutamatergic synaptic transmission.

Submit: New GeneRIF Correction See all GeneRIFs (11)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH142722 (e-PCR)
- UniSTS:231969

RH138422 (e-PCR)
- UniSTS:220509

RH139484 (e-PCR)
- UniSTS:221570

Rap1a (e-PCR), detects polymorphism
- UniSTS:532892

RH140317 (e-PCR)
- UniSTS:222394

RH142625 (e-PCR)
- UniSTS:231872

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables G protein activity	IEA Inferred from Electronic Annotation more info
enables GDP binding	IBA Inferred from Biological aspect of Ancestor more info
enables GTP binding	IBA Inferred from Biological aspect of Ancestor more info
enables GTP binding	IDA Inferred from Direct Assay more info	PubMed
enables GTP binding	IEA Inferred from Electronic Annotation more info
enables GTPase activity	IBA Inferred from Biological aspect of Ancestor more info
enables GTPase activity	IEA Inferred from Electronic Annotation more info
enables GTPase activity	ISO Inferred from Sequence Orthology more info
enables guanyl-nucleotide exchange factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	ISO Inferred from Sequence Orthology more info
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in Rap protein signal transduction	IBA Inferred from Biological aspect of Ancestor more info
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 cellular response to cAMP	IBA Inferred from Biological aspect of Ancestor more info
involved_in cellular response to cAMP	IEP Inferred from Expression Pattern more info	PubMed
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 nerve growth factor stimulus	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to nerve growth factor stimulus	IEP Inferred from Expression Pattern more info	PubMed
involved_in cellular response to organic cyclic compound	IDA Inferred from Direct Assay more info	PubMed
involved_in cellular response to xenobiotic stimulus	IDA Inferred from Direct Assay more info	PubMed
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 liver regeneration	IEP Inferred from Expression Pattern more info	PubMed
NOT involved_in microvillus assembly	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of collagen biosynthetic process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of synaptic vesicle exocytosis	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within negative regulation of synaptic vesicle exocytosis	ISO Inferred from Sequence Orthology more info
involved_in nerve growth factor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
involved_in nervous system development	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of D-glucose import	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of ERK1 and ERK2 cascade	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Fc receptor mediated stimulatory signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of GTPase activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within 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 positive regulation of protein kinase activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of vasculogenesis	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of vasculogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in protein localization to plasma membrane	ISO Inferred from Sequence Orthology more info
involved_in protein localization to plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of cell junction assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell junction assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of neurotransmitter receptor localization to postsynaptic specialization membrane	ISO Inferred from Sequence Orthology more info
involved_in response to antineoplastic agent	IDA Inferred from Direct Assay more info	PubMed
involved_in response to carbohydrate	IEP Inferred from Expression Pattern more info	PubMed
involved_in signal transduction	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within small GTPase-mediated signal transduction	ISO Inferred from Sequence Orthology more info
acts_upstream_of synaptic vesicle exocytosis	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in anchoring junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell junction	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytosol	IEA Inferred from Electronic Annotation more info
located_in cytosol	TAS Traceable Author Statement more info
located_in early endosome	IDA Inferred from Direct Assay more info	PubMed
located_in endomembrane system	IEA Inferred from Electronic Annotation more info
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
part_of guanyl-nucleotide exchange factor complex	ISO Inferred from Sequence Orthology more info
located_in late endosome	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in neuron projection	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in phagocytic vesicle	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	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in presynapse	IEA Inferred from Electronic Annotation more info
located_in sperm midpiece	ISO Inferred from Sequence Orthology more info
located_in sperm midpiece	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: ras-related protein Rap-1A

Names: RAS-related protein 1a; ras-related protein Krev-1

NP_001005765.1

EC 3.6.5.2

XP_038958003.1

EC 3.6.5.2

XP_063137718.1

EC 3.6.5.2

XP_063137719.1

EC 3.6.5.2

XP_063137720.1

EC 3.6.5.2

XP_063137721.1

EC 3.6.5.2

XP_063137722.1

EC 3.6.5.2

XP_063137723.1

EC 3.6.5.2

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)

NM_001005765.1 → NP_001005765.1 ras-related protein Rap-1A

See identical proteins and their annotated locations for NP_001005765.1

Status: PROVISIONAL

Source sequence(s)

BC083813

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A0A8L2UI57, A6K3S0

Related

ENSRNOP00000040409.2, ENSRNOT00000047836.6

Conserved Domains (1) summary

cd04175
Location:3 → 167

Rap1; Rap1 family GTPase consists of Rap1a and Rap1b isoforms

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_086020.1 Reference GRCr8

Range

195896967..195974851 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039102075.2 → XP_038958003.1 ras-related protein Rap-1A isoform X2

UniProtKB/TrEMBL

A0A8L2UI57

Conserved Domains (1) summary

cl38936
Location:3 → 144

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
XM_063281648.1 → XP_063137718.1 ras-related protein Rap-1A isoform X1

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A6K3S0
XM_063281651.1 → XP_063137721.1 ras-related protein Rap-1A isoform X1

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A6K3S0
XM_063281653.1 → XP_063137723.1 ras-related protein Rap-1A isoform X1

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A6K3S0
XM_063281652.1 → XP_063137722.1 ras-related protein Rap-1A isoform X1

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A6K3S0
XM_063281649.1 → XP_063137719.1 ras-related protein Rap-1A isoform X1

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A6K3S0
XM_063281650.1 → XP_063137720.1 ras-related protein Rap-1A isoform X1

UniProtKB/Swiss-Prot

P62836

UniProtKB/TrEMBL

A6K3S0