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Efna1 ephrin A1 [ Rattus norvegicus (Norway rat) ]

Gene ID: 94268, updated on 28-Oct-2018

Summary

Official Symbol
Efna1provided by RGD
Official Full Name
ephrin A1provided by RGD
Primary source
RGD:620388
See related
Ensembl:ENSRNOG00000020573
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
B61
Summary
ligand of receptor tyrosine kinases; involved in thymic function and development [RGD, Feb 2006]
Expression
Biased expression in Lung (RPKM 119.1), Liver (RPKM 102.8) and 8 other tissues See more
Orthologs

Genomic context

See Efna1 in Genome Data Viewer
Location:
2q34
Exon count:
7
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 2 NC_005101.4 (188588808..188596156, complement)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 2 NC_005101.3 (208002153..208010763, complement)

Chromosome 2 - NC_005101.4Genomic Context describing neighboring genes Neighboring gene solute carrier family 50 member 1 Neighboring gene dolichyl-phosphate mannosyltransferase subunit 3 Neighboring gene uncharacterized LOC102550325 Neighboring gene uncharacterized LOC103691619

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into FunctionsWhat's a GeneRIF?

Pathways from BioSystems

  • Axon guidance, organism-specific biosystem (from KEGG)
    Axon guidance, organism-specific biosystemAxon guidance represents a key stage in the formation of neuronal network. Axons are guided by a variety of guidance factors, such as netrins, ephrins, Slits, and semaphorins. These guidance cues are...
  • Axon guidance, conserved biosystem (from KEGG)
    Axon guidance, conserved biosystemAxon guidance represents a key stage in the formation of neuronal network. Axons are guided by a variety of guidance factors, such as netrins, ephrins, Slits, and semaphorins. These guidance cues are...
  • Axon guidance, organism-specific biosystem (from REACTOME)
    Axon guidance, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • Developmental Biology, organism-specific biosystem (from REACTOME)
    Developmental Biology, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • EPH-Ephrin signaling, organism-specific biosystem (from REACTOME)
    EPH-Ephrin signaling, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • EPH-ephrin mediated repulsion of cells, organism-specific biosystem (from REACTOME)
    EPH-ephrin mediated repulsion of cells, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • EPHA-mediated growth cone collapse, organism-specific biosystem (from REACTOME)
    EPHA-mediated growth cone collapse, organism-specific biosystemcomputationally inferred pathway (not manually curated)
  • PI3K-Akt signaling pathway, organism-specific biosystem (from KEGG)
    PI3K-Akt signaling pathway, organism-specific biosystemThe phosphatidylinositol 3' -kinase(PI3K)-Akt signaling pathway is activated by many types of cellular stimuli or toxic insults and regulates fundamental cellular functions such as transcription, tra...
  • PI3K-Akt signaling pathway, conserved biosystem (from KEGG)
    PI3K-Akt signaling pathway, conserved biosystemThe phosphatidylinositol 3' -kinase(PI3K)-Akt signaling pathway is activated by many types of cellular stimuli or toxic insults and regulates fundamental cellular functions such as transcription, tra...
  • Rap1 signaling pathway, organism-specific biosystem (from KEGG)
    Rap1 signaling pathway, organism-specific biosystemRap1 is a small GTPase that controls diverse processes, such as cell adhesion, cell-cell junction formation and cell polarity. Like all G proteins, Rap1 cycles between an inactive GDP-bound and an ac...
  • Rap1 signaling pathway, conserved biosystem (from KEGG)
    Rap1 signaling pathway, conserved biosystemRap1 is a small GTPase that controls diverse processes, such as cell adhesion, cell-cell junction formation and cell polarity. Like all G proteins, Rap1 cycles between an inactive GDP-bound and an ac...
  • Ras signaling pathway, organism-specific biosystem (from KEGG)
    Ras signaling pathway, organism-specific biosystemThe Ras proteins are GTPases that function as molecular switches for signaling pathways regulating cell proliferation, survival, growth, migration, differentiation or cytoskeletal dynamism. Ras prote...

General gene information

Markers

Homology

Gene Ontology Provided by RGD

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

General protein information

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

NCBI Reference Sequences (RefSeq)

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_053599.2NP_446051.2  ephrin-A1 precursor

    See identical proteins and their annotated locations for NP_446051.2

    Status: PROVISIONAL

    Source sequence(s)
    BC070514
    UniProtKB/Swiss-Prot
    P97553
    Related
    ENSRNOP00000027920.3, ENSRNOT00000027920.5
    Conserved Domains (1) summary
    cd10425
    Location:19147
    Ephrin-A_Ectodomain; Ectodomain of Ephrin A

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 106 details...Open this link in a new tab

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

Reference Rnor_6.0 Primary Assembly

Genomic

  1. NC_005101.4 Reference Rnor_6.0 Primary Assembly

    Range
    188588808..188596156 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_008761228.1XP_008759450.1  ephrin-A1 isoform X1

    Conserved Domains (1) summary
    cl19115
    Location:184
    Cupredoxin; Cupredoxin superfamily
  2. XM_017591148.1XP_017446637.1  ephrin-A1 isoform X1

    Conserved Domains (1) summary
    cl19115
    Location:184
    Cupredoxin; Cupredoxin superfamily

Alternate Rn_Celera

Genomic

  1. AC_000070.1 Alternate Rn_Celera

    Range
    168623896..168631240 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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