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Efnb2 ephrin B2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 306636, updated on 2-Oct-2018

Summary

Official Symbol
Efnb2provided by RGD
Official Full Name
ephrin B2provided by RGD
Primary source
RGD:1309497
See related
Ensembl:ENSRNOG00000014648
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
Expression
Biased expression in Lung (RPKM 356.9), Heart (RPKM 94.0) and 7 other tissues See more
Orthologs

Genomic context

See Efnb2 in Genome Data Viewer
Location:
16q12.5
Exon count:
5
Annotation release Status Assembly Chr Location
106 current Rnor_6.0 (GCF_000001895.5) 16 NC_005115.4 (86631151..86672050)
104 previous assembly Rnor_5.0 (GCF_000001895.4) 16 NC_005115.3 (86044304..86085652)

Chromosome 16 - NC_005115.4Genomic Context describing neighboring genes Neighboring gene similar to zinc finger protein, subfamily 1A, 5 Neighboring gene arginine and glutamate rich 1 Neighboring gene similar to sushi domain containing 3 Neighboring gene uncharacterized LOC103694011

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

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
 
protein tyrosine kinase activity ISO
Inferred from Sequence Orthology
more info
 
signaling receptor binding ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
T cell costimulation IEA
Inferred from Electronic Annotation
more info
 
T cell costimulation ISO
Inferred from Sequence Orthology
more info
 
animal organ morphogenesis IEA
Inferred from Electronic Annotation
more info
 
animal organ morphogenesis ISO
Inferred from Sequence Orthology
more info
 
axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
blood vessel morphogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
blood vessel morphogenesis ISO
Inferred from Sequence Orthology
more info
 
cell adhesion IEA
Inferred from Electronic Annotation
more info
 
cell adhesion ISO
Inferred from Sequence Orthology
more info
 
cell migration involved in sprouting angiogenesis IEA
Inferred from Electronic Annotation
more info
 
cell migration involved in sprouting angiogenesis 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
 
lymph vessel development IEA
Inferred from Electronic Annotation
more info
 
lymph vessel development ISO
Inferred from Sequence Orthology
more info
 
negative regulation of keratinocyte proliferation IEA
Inferred from Electronic Annotation
more info
 
negative regulation of keratinocyte proliferation ISO
Inferred from Sequence Orthology
more info
 
negative regulation of neuron projection development IEA
Inferred from Electronic Annotation
more info
 
negative regulation of neuron projection development ISO
Inferred from Sequence Orthology
more info
 
nephric duct morphogenesis IEA
Inferred from Electronic Annotation
more info
 
nephric duct morphogenesis ISO
Inferred from Sequence Orthology
more info
 
positive regulation of aorta morphogenesis IEA
Inferred from Electronic Annotation
more info
 
positive regulation of aorta morphogenesis ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cardiac muscle cell differentiation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cardiac muscle cell differentiation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of cell proliferation IEA
Inferred from Electronic Annotation
more info
 
positive regulation of cell proliferation ISO
Inferred from Sequence Orthology
more info
 
positive regulation of neuron death IEA
Inferred from Electronic Annotation
more info
 
positive regulation of neuron death ISO
Inferred from Sequence Orthology
more info
 
presynapse assembly IDA
Inferred from Direct Assay
more info
PubMed 
presynapse assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
regulation of chemotaxis IEA
Inferred from Electronic Annotation
more info
 
regulation of chemotaxis ISO
Inferred from Sequence Orthology
more info
 
regulation of postsynaptic membrane neurotransmitter receptor levels IEA
Inferred from Electronic Annotation
more info
 
regulation of postsynaptic membrane neurotransmitter receptor levels ISO
Inferred from Sequence Orthology
more info
 
regulation of postsynaptic neurotransmitter receptor internalization IEA
Inferred from Electronic Annotation
more info
 
regulation of postsynaptic neurotransmitter receptor internalization ISO
Inferred from Sequence Orthology
more info
 
venous blood vessel morphogenesis IEA
Inferred from Electronic Annotation
more info
 
venous blood vessel morphogenesis ISO
Inferred from Sequence Orthology
more info
 
Component Evidence Code Pubs
Schaffer collateral - CA1 synapse IEA
Inferred from Electronic Annotation
more info
 
Schaffer collateral - CA1 synapse ISO
Inferred from Sequence Orthology
more info
 
glutamatergic synapse IDA
Inferred from Direct Assay
more info
PubMed 
glutamatergic synapse IMP
Inferred from Mutant Phenotype
more info
PubMed 
glutamatergic synapse ISO
Inferred from Sequence Orthology
more info
 
integral component of postsynaptic density membrane IEA
Inferred from Electronic Annotation
more info
 
integral component of postsynaptic density membrane ISO
Inferred from Sequence Orthology
more info
 
integral component of presynaptic membrane IDA
Inferred from Direct Assay
more info
PubMed 
plasma membrane IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
plasma membrane ISO
Inferred from Sequence Orthology
more info
 

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_001107328.2NP_001100798.1  ephrin-B2

    See identical proteins and their annotated locations for NP_001100798.1

    Status: PROVISIONAL

    Source sequence(s)
    DQ011669
    UniProtKB/TrEMBL
    B2B9A9
    Related
    ENSRNOP00000019675.4, ENSRNOT00000019675.6
    Conserved Domains (1) summary
    cd10426
    Location:32168
    Ephrin-B_Ectodomain; Ectodomain of Ephrin B

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_005115.4 Reference Rnor_6.0 Primary Assembly

    Range
    86631151..86672050
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate Rn_Celera

Genomic

  1. AC_000084.1 Alternate Rn_Celera

    Range
    78561525..78602409
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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