U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Efna1 ephrin A1 [ Mus musculus (house mouse) ]

    Gene ID: 13636, updated on 9-Dec-2024

    Summary

    Official Symbol
    Efna1provided by MGI
    Official Full Name
    ephrin A1provided by MGI
    Primary source
    MGI:MGI:103236
    See related
    Ensembl:ENSMUSG00000027954 AllianceGenome:MGI:103236
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    B61; Efl1; Epl1; Eplg1; Lerk1
    Summary
    Enables ephrin receptor binding activity. Involved in several processes, including ephrin receptor signaling pathway; heart valve morphogenesis; and negative regulation of dendritic spine morphogenesis. Acts upstream of or within several processes, including negative regulation of thymocyte apoptotic process; nervous system development; and regulation of MAPK cascade. Located in plasma membrane. Is expressed in several structures, including alimentary system; brain; cardiovascular system; genitourinary system; and sensory organ. Orthologous to human EFNA1 (ephrin A1). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in colon adult (RPKM 52.5), lung adult (RPKM 50.2) and 20 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Efna1 in Genome Data Viewer
    Location:
    3 F1; 3 39.04 cM
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 3 NC_000069.7 (89179037..89188258, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 3 NC_000069.6 (89271730..89280951, complement)

    Chromosome 3 - NC_000069.7Genomic Context describing neighboring genes Neighboring gene dolichyl-phosphate mannosyltransferase polypeptide 3 Neighboring gene solute carrier family 50 (sugar transporter), member 1 Neighboring gene VISTA enhancer mm1415 Neighboring gene predicted gene, 33845 Neighboring gene predicted gene, 34014 Neighboring gene ephrin A3

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)
    • Endonuclease-mediated (1) 
    • Targeted (2)  1 citation

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables ephrin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ephrin receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables ephrin receptor binding ISO
    Inferred from Sequence Orthology
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in angiogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in aortic valve morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in ephrin receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    acts_upstream_of_or_within ephrin receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in ephrin receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in ephrin receptor signaling pathway ISO
    Inferred from Sequence Orthology
    more info
     
    involved_in mitral valve morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within negative regulation of MAPK cascade IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of dendritic spine morphogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of epithelial to mesenchymal transition IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in negative regulation of transcription by RNA polymerase II IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    acts_upstream_of_or_within neuron differentiation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within notochord formation IGI
    Inferred from Genetic Interaction
    more info
    PubMed 
    acts_upstream_of_or_within positive regulation of MAPK cascade IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 aspartic-type endopeptidase activity involved in amyloid precursor protein catabolic process 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 positive regulation of protein tyrosine kinase activity 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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    acts_upstream_of_or_within regulation of axonogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of blood vessel endothelial cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    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 IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in side of membrane IEA
    Inferred from Electronic Annotation
    more info
     

    General protein information

    Preferred Names
    ephrin-A1
    Names
    EPH-related receptor tyrosine kinase ligand 1
    immediate early response protein B61

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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)

    1. NM_001162425.1NP_001155897.1  ephrin-A1 isoform 2

      See identical proteins and their annotated locations for NP_001155897.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) differs in the 5' UTR, lacks a portion of the 5' coding region, and initiates translation at a downstream start codon, compared to variant 1. The encoded isoform (2) is shorter than isoform 1.
      Source sequence(s)
      AC132327, AK079266
      Consensus CDS
      CCDS50961.1
      UniProtKB/TrEMBL
      D3YTT5
      Related
      ENSMUSP00000112904.2, ENSMUST00000118587.8
      Conserved Domains (1) summary
      cl19115
      Location:184
      Cupredoxin; Cupredoxin superfamily
    2. NM_010107.4NP_034237.3  ephrin-A1 isoform 1 precursor

      See identical proteins and their annotated locations for NP_034237.3

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript and encodes the longer isoform (1).
      Source sequence(s)
      AC132327, AK009144, CN696019
      Consensus CDS
      CCDS17501.1
      UniProtKB/Swiss-Prot
      P52793, P97331
      UniProtKB/TrEMBL
      Q9D7K8
      Related
      ENSMUSP00000029566.3, ENSMUST00000029566.9
      Conserved Domains (1) summary
      cd10425
      Location:19147
      Ephrin-A_Ectodomain; Ectodomain of Ephrin A

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000069.7 Reference GRCm39 C57BL/6J

      Range
      89179037..89188258 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)