Efna1 ephrin A1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Efna1provided by RGD
Official Full Name: ephrin A1provided by RGD
Primary source: RGD:620388
See related: Ensembl:ENSRNOG00000020573 AllianceGenome:RGD:620388
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: B61
Summary: Predicted to enable ephrin receptor binding activity. Predicted to be involved in several processes, including cell morphogenesis involved in differentiation; heart valve morphogenesis; and regulation of protein metabolic process. Predicted to act upstream of or within several processes, including negative regulation of thymocyte apoptotic process; nervous system development; and regulation of MAPK cascade. Predicted to be located in extracellular region. Predicted to be active in plasma membrane. Predicted to be anchored component of plasma membrane. Orthologous to human EFNA1 (ephrin A1). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Lung (RPKM 119.1), Liver (RPKM 102.8) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 2q34

Exon count:: 8

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	2	NC_086020.1 (176979434..176988675, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	2	NC_051337.1 (174681676..174689061, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	2	NC_005101.4 (188588808..188596156, 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?

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.
The findings that ephrinA1-PE38/GM-CSF had a high efficacy in the activation of the dendritic cells would facilitate the development of in vivo dendritic-cell vaccines for the treatment of gliomas in rats
Title: A novel recombinant protein of ephrinA1-PE38/GM-CSF activate dendritic cells vaccine in rats with glioma.
Data suggest that ephrinA1 ligands play a role in the pathophysiology of spinal cord injury.
Title: Expression profile and role of EphrinA1 ligand after spinal cord injury.
The Rac/PAK pathwayis involved in ephrinA1-mediated inhibition of cell spreading. In this way, ephrinA1, alone or in synergy with S1P, can participate in blood vessel destabilization, a prerequisite for angiogenesis.
Title: EphrinA1 inactivates integrin-mediated vascular smooth muscle cell spreading via the Rac/PAK pathway.
Ephrin A1 is expressed in adult thymic connective tissue trabeculae, most cortical epithelial cells, and both cortical and medullary thymocytes.
Title: Expression and function of the Eph A receptors and their ligands ephrins A in the rat thymus.

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General gene information

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Markers

RH128971 (e-PCR)
- UniSTS:212279

Efna1 (e-PCR), detects polymorphism
- UniSTS:261205

Efna1 (e-PCR), detects polymorphism
- UniSTS:266978

Efna1 (e-PCR), detects polymorphism
- UniSTS:495859

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ephrin receptor binding	IBA Inferred from Biological aspect of Ancestor more info
enables ephrin receptor binding	IEA Inferred from Electronic Annotation more info
enables ephrin receptor binding	ISO Inferred from Sequence Orthology more info
enables ephrin receptor binding	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in angiogenesis	NAS Non-traceable Author Statement more info	PubMed
involved_in aortic valve morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell migration	IEA Inferred from Electronic Annotation more info
involved_in cell migration	ISO Inferred from Sequence Orthology more info
involved_in endocardial cushion to mesenchymal transition involved in heart valve formation	ISO Inferred from Sequence Orthology more info
involved_in ephrin receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in ephrin receptor signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within ephrin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in ephrin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in ephrin receptor signaling pathway	ISS Inferred from Sequence or Structural Similarity more info
involved_in mitral valve morphogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendritic spine morphogenesis	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of dendritic spine morphogenesis	ISS Inferred from Sequence or Structural Similarity more info
involved_in negative regulation of epithelial to mesenchymal transition	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of proteolysis involved in protein catabolic process	IEA Inferred from Electronic Annotation 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 negative regulation of thymocyte apoptotic process	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within neuron differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within notochord formation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within positive regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of amyloid-beta formation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of amyloid-beta formation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of peptidyl-tyrosine phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of protein phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein stabilization	IEA Inferred from Electronic Annotation more info
involved_in protein stabilization	ISO Inferred from Sequence Orthology more info
involved_in regulation of angiogenesis	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of axonogenesis	ISO Inferred from Sequence Orthology more info
involved_in regulation of blood vessel endothelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell adhesion mediated by integrin	IEA Inferred from Electronic Annotation more info
involved_in regulation of cell adhesion mediated by integrin	ISO Inferred from Sequence Orthology more info
involved_in regulation of peptidyl-tyrosine phosphorylation	ISO Inferred from Sequence Orthology more info
involved_in regulation of peptidyl-tyrosine phosphorylation	ISS Inferred from Sequence or Structural Similarity more info
involved_in substrate adhesion-dependent cell spreading	IEA Inferred from Electronic Annotation more info
involved_in substrate adhesion-dependent cell spreading	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in extracellular region	IEA Inferred from Electronic Annotation more info
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 side of membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: ephrin-A1

Names: EPH-related receptor tyrosine kinase ligand 1; LERK-1; immediate early response protein B61

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_053599.3 → NP_446051.2 ephrin-A1 precursor

See identical proteins and their annotated locations for NP_446051.2

Status: VALIDATED

Source sequence(s)

JAXUCZ010000002

UniProtKB/Swiss-Prot

P97553, Q6NS29

UniProtKB/TrEMBL

A0A8L2QHH8, A6J6E5

Related

ENSRNOP00000027920.4, ENSRNOT00000027920.6

Conserved Domains (1) summary

cd10425
Location:19 → 147

Ephrin-A_Ectodomain; Ectodomain of Ephrin A

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

176979434..176988675 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063282651.1 → XP_063138721.1 ephrin-A1 isoform X1

UniProtKB/TrEMBL

A0A8I5ZUD2
XM_008761228.3 → XP_008759450.1 ephrin-A1 isoform X2

Conserved Domains (1) summary

cl19115
Location:1 → 84

Cupredoxin; Cupredoxin superfamily