Epha4 Eph receptor A4 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Epha4provided by RGD
Official Full Name: Eph receptor A4provided by RGD
Primary source: RGD:1560587
See related: Ensembl:ENSRNOG00000013213 AllianceGenome:RGD:1560587
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: RGD1560587
Summary: Enables ephrin receptor binding activity. Involved in several processes, including regulation of modification of synaptic structure; regulation of neuron projection development; and synapse pruning. Located in several cellular components, including dendrite; distal axon; and perikaryon. Is integral component of plasma membrane. Is active in glutamatergic synapse. Biomarker of toxic encephalopathy. Orthologous to human EPHA4 (EPH receptor A4). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Brain (RPKM 221.6), Heart (RPKM 84.6) and 7 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 9q33

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	9	NC_086027.1 (86263982..86406744, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	9	NC_051344.1 (78815460..78958139, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	9	NC_005108.4 (83111222..83253486, complement)

Chromosome 9 - NC_086027.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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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?

Effects of lncRNA HOXA11-AS on Sevoflurane-Induced Neuronal Apoptosis and Inflammatory Responses by Regulating miR-98-5p/EphA4.
Title: Effects of lncRNA HOXA11-AS on Sevoflurane-Induced Neuronal Apoptosis and Inflammatory Responses by Regulating miR-98-5p/EphA4.
EphA4/ephrinA3 reverse signaling mediated downregulation of glutamate transporter GLAST in Muller cells in an experimental glaucoma model.
Title: EphA4/ephrinA3 reverse signaling mediated downregulation of glutamate transporter GLAST in Müller cells in an experimental glaucoma model.
Nogo-A-Delta20/EphA4 interaction antagonizes apoptosis of neural stem cells by integrating p38 and JNK MAPK signaling.
Title: Nogo-A-Δ20/EphA4 interaction antagonizes apoptosis of neural stem cells by integrating p38 and JNK MAPK signaling.
EphA4 is highly expressed in the atria of heart and its deletion leads to atrial hypertrophy and electrocardiographic abnormalities in rats.
Title: EphA4 is highly expressed in the atria of heart and its deletion leads to atrial hypertrophy and electrocardiographic abnormalities in rats.
n the present study, we demonstrated that EphA4 receptor potentiated the activity of outwardly rectifying chloride channel in rat hippocampal neurons after ischemia-reperfusion
Title: EphA4 receptor regulates outwardly rectifying chloride channel in CA1 hippocampal neurons after ischemia-reperfusion.
In myelinating co-cultures and in zebrafish, we find that the number of mature oligodendrocytes does not change as result of manipulating signaling through the ephrinA1-EphA4 system. However, in both systems, inhibition of EphA4 signaling leads to a higher number of myelin sheaths formed by each oligodendrocyte. In isolated oligodendrocyte cultures, activation of EphA4 reduced process extension.
Title: Ephrin-A1-EphA4 signaling negatively regulates myelination in the central nervous system.
Exosomal miR-10a might accelerate liver regeneration through downregulation of EphA4.
Title: Exosomal MicroRNA-10a Is Associated with Liver Regeneration in Rats through Downregulation of EphA4.
EphrinA4 is involved in regulation of neuronal morphogenesis.
Title: EphrinA4 mimetic peptide targeted to EphA binding site impairs the formation of long-term fear memory in lateral amygdala.
EphA4 mediates the inhibitory effect on Schwann cell migration, and EphA4 knock-down can strongly increase Schwann cell migration and peripheral nerve regeneration.
Title: Inhibition of EphA4 expression promotes Schwann cell migration and peripheral nerve regeneration.
The kinase activity of EphA4, via activation of downstream Cdk5 activity, mediates the scaling-down of excitatory synaptic strength.
Title: The kinase activity of EphA4 mediates homeostatic scaling-down of synaptic strength via activation of Cdk5.

Submit: New GeneRIF Correction See all GeneRIFs (16)

General gene information

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Markers

Epha4 (e-PCR), detects polymorphism
- UniSTS:495882

MARC_49122-49123:1117732036:1 (e-PCR)
- UniSTS:477489

D9Mco4 (e-PCR)
- UniSTS:239666

D9Mco7 (e-PCR)
- UniSTS:239669

D9Mco36 (e-PCR)
- UniSTS:518461

PMC23772P1 (e-PCR)
- UniSTS:272208

D9Mco87 (e-PCR)
- UniSTS:526168

D9Got102 (e-PCR)
- UniSTS:112535

D9Mco37 (e-PCR)
- UniSTS:518825

BE116570 (e-PCR)
- UniSTS:248504

BM389593 (e-PCR)
- UniSTS:261859

RH143200 (e-PCR)
- UniSTS:232447

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables DH domain binding	ISO Inferred from Sequence Orthology more info
enables DH domain binding	ISS Inferred from Sequence or Structural Similarity more info
enables GPI-linked ephrin receptor activity	ISO Inferred from Sequence Orthology more info
enables GPI-linked ephrin receptor activity	ISS Inferred from Sequence or Structural Similarity more info
enables PH domain binding	ISO Inferred from Sequence Orthology more info
enables ephrin receptor binding	IDA Inferred from Direct Assay more info	PubMed
enables identical protein binding	ISO Inferred from Sequence Orthology more info
enables kinase activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein kinase activity	ISO Inferred from Sequence Orthology more info
enables protein kinase activity	ISS Inferred from Sequence or Structural Similarity more info
enables protein tyrosine kinase binding	ISO Inferred from Sequence Orthology more info
enables transmembrane receptor protein tyrosine kinase activity	ISO Inferred from Sequence Orthology more info
enables transmembrane-ephrin receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables transmembrane-ephrin receptor activity	ISO Inferred from Sequence Orthology more info
enables transmembrane-ephrin receptor activity	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
involved_in adherens junction organization	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within adult walking behavior	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	ISO Inferred from Sequence Orthology more info
involved_in cellular response to amyloid-beta	ISO Inferred from Sequence Orthology more info
involved_in cochlea development	ISO Inferred from Sequence Orthology more info
involved_in corticospinal tract morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in corticospinal tract morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in ephrin receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in ephrin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in fasciculation of motor neuron axon	ISO Inferred from Sequence Orthology more info
involved_in fasciculation of motor neuron axon	ISS Inferred from Sequence or Structural Similarity more info
involved_in fasciculation of sensory neuron axon	ISO Inferred from Sequence Orthology more info
involved_in glial cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within innervation	ISO Inferred from Sequence Orthology more info
involved_in motor neuron axon guidance	ISO Inferred from Sequence Orthology more info
involved_in motor neuron axon guidance	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
NOT involved_in negative regulation of axon regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of axon regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in negative regulation of axon regeneration	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of axon regeneration	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of cellular response to hypoxia	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of epithelial to mesenchymal transition	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of long-term synaptic potentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of neuron apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of proteolysis involved in protein catabolic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within nephric duct morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in neuron projection fasciculation	ISO Inferred from Sequence Orthology more info
involved_in neuron projection guidance	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of amyloid-beta formation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell adhesion	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein phosphorylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of astrocyte differentiation	ISO Inferred from Sequence Orthology more info
involved_in regulation of astrocyte differentiation	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of axonogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of dendritic spine morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of dendritic spine morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of modification of synaptic structure	IGI Inferred from Genetic Interaction more info	PubMed
involved_in regulation of modification of synaptic structure	ISO Inferred from Sequence Orthology more info
involved_in regulation of synapse pruning	EXP Inferred from Experiment more info	PubMed
involved_in regulation of synapse pruning	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of synapse pruning	IEP Inferred from Expression Pattern more info	PubMed
involved_in regulation of synapse pruning	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synapse pruning	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
is_active_in Schaffer collateral - CA1 synapse	ISO Inferred from Sequence Orthology more info
located_in axon	ISO Inferred from Sequence Orthology more info
located_in axon	ISS Inferred from Sequence or Structural Similarity more info
located_in axon	NAS Non-traceable Author Statement more info	PubMed
located_in axon terminus	IDA Inferred from Direct Assay more info	PubMed
located_in axonal growth cone	IDA Inferred from Direct Assay more info	PubMed
located_in cell body	IDA Inferred from Direct Assay more info	PubMed
located_in cell projection	IDA Inferred from Direct Assay more info	PubMed
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
is_active_in dendrite	IBA Inferred from Biological aspect of Ancestor more info
located_in dendrite	IDA Inferred from Direct Assay more info	PubMed
located_in dendrite	ISO Inferred from Sequence Orthology more info
located_in dendrite	ISS Inferred from Sequence or Structural Similarity more info
located_in dendritic shaft	IDA Inferred from Direct Assay more info	PubMed
located_in dendritic spine	IDA Inferred from Direct Assay more info	PubMed
located_in early endosome membrane	ISO Inferred from Sequence Orthology more info
located_in early endosome membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in filopodium	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	EXP Inferred from Experiment more info	PubMed
is_active_in glutamatergic synapse	IDA Inferred from Direct Assay more info	PubMed
is_active_in glutamatergic synapse	IMP Inferred from Mutant Phenotype more info	PubMed
is_active_in glutamatergic synapse	ISO Inferred from Sequence Orthology more info
located_in mitochondrial outer membrane	IDA Inferred from Direct Assay more info	PubMed
located_in neuromuscular junction	IDA Inferred from Direct Assay more info	PubMed
located_in perikaryon	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	ISO Inferred from Sequence Orthology more info
located_in postsynaptic density	IDA Inferred from Direct Assay more info	PubMed
is_active_in postsynaptic membrane	ISO Inferred from Sequence Orthology more info
is_active_in presynaptic membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ephrin type-A receptor 4

NP_001155883.1

EC 2.7.10.1

XP_008765471.1

EC 2.7.10.1

XP_038939611.1

EC 2.7.10.1

XP_038939612.1

EC 2.7.10.1

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_001162411.1 → NP_001155883.1 ephrin type-A receptor 4 precursor

See identical proteins and their annotated locations for NP_001155883.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000009

UniProtKB/TrEMBL

A6JW54

Conserved Domains (5) summary

cd09545
Location:911 → 981

SAM_EPH-A4; SAM domain of EPH-A4 subfamily of tyrosine kinase receptors

cd10482
Location:30 → 203

EphR_LBD_A4; Ligand Binding Domain of Ephrin type-A Receptor 4

cd00063
Location:441 → 532

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd05066
Location:616 → 882

PTKc_EphR_A; Catalytic domain of the Protein Tyrosine Kinases, Class EphA Ephrin Receptors

pfam14575
Location:562 → 618

EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

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_086027.1 Reference GRCr8

Range

86263982..86406744 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039083683.2 → XP_038939611.1 ephrin type-A receptor 4 isoform X2

UniProtKB/TrEMBL

A6JW54

Conserved Domains (5) summary

cd09545
Location:860 → 930

SAM_EPH-A4; SAM domain of EPH-A4 subfamily of tyrosine kinase receptors

cd10473
Location:3 → 152

EphR_LBD_A; Ligand Binding Domain of Ephrin type-A Receptors

cd00063
Location:390 → 481

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd05066
Location:565 → 831

PTKc_EphR_A; Catalytic domain of the Protein Tyrosine Kinases, Class EphA Ephrin Receptors

pfam14575
Location:511 → 567

EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
XM_008767249.4 → XP_008765471.1 ephrin type-A receptor 4 isoform X1

UniProtKB/TrEMBL

A6JW54, D3ZZK3

Related

ENSRNOP00000051316.4

Conserved Domains (5) summary

cd10482
Location:30 → 203

EphR_LBD_A4; Ligand Binding Domain of Ephrin type-A Receptor 4

cd00063
Location:441 → 532

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd05066
Location:616 → 882

PTKc_EphR_A; Catalytic domain of the Protein Tyrosine Kinases, Class EphA Ephrin Receptors

pfam14575
Location:562 → 618

EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

cl15755
Location:911 → 949

SAM_superfamily; SAM (Sterile alpha motif )
XM_039083684.2 → XP_038939612.1 ephrin type-A receptor 4 isoform X3

Conserved Domains (4) summary

cd09545
Location:630 → 700

SAM_EPH-A4; SAM domain of EPH-A4 subfamily of tyrosine kinase receptors

cd00063
Location:160 → 251

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

cd05066
Location:335 → 601

PTKc_EphR_A; Catalytic domain of the Protein Tyrosine Kinases, Class EphA Ephrin Receptors

pfam14575
Location:281 → 337

EphA2_TM; Ephrin type-A receptor 2 transmembrane domain