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Ephb2 Eph receptor B2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 313633, updated on 8-Dec-2022

Summary

Symbol
Ephb2provided by RGD
Full Name
Eph receptor B2provided by RGD
Primary source
RGD:1564232
See related
Ensembl:ENSRNOG00000012531 AllianceGenome:RGD:1564232
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
RGD1564232
Summary
Predicted to enable several functions, including amyloid-beta binding activity; identical protein binding activity; and transmembrane signaling receptor activity. Involved in several processes, including cell junction assembly; positive regulation of nervous system development; and regulation of gene expression. Located in Golgi apparatus; cell surface; and dendritic spine. Is active in glutamatergic synapse. Used to study irritable bowel syndrome and ulcerative colitis. Biomarker of irritable bowel syndrome and middle cerebral artery infarction. Human ortholog(s) of this gene implicated in blood platelet disease. Orthologous to human EPHB2 (EPH receptor B2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 50.5), Kidney (RPKM 28.4) and 8 other tissues See more
Orthologs
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Genomic context

See Ephb2 in Genome Data Viewer
Location:
5q36
Exon count:
16
Annotation release Status Assembly Chr Location
108 current mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (148889574..149077027, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (155024478..155143539, complement)

Chromosome 5 - NC_051340.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120103012 Neighboring gene lactamase beta like 1 Neighboring gene complement C1q B chain Neighboring gene complement C1q C chain

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 Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables ATP binding IEA
Inferred from Electronic Annotation
more info
 
enables amyloid-beta binding ISO
Inferred from Sequence Orthology
more info
 
enables axon guidance receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables ephrin receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
 
enables molecular_function ND
No biological Data available
more info
 
enables protein tyrosine kinase activity ISO
Inferred from Sequence Orthology
more info
 
enables protein-containing complex binding IPI
Inferred from Physical Interaction
more info
PubMed 
enables protein-containing complex binding ISO
Inferred from Sequence Orthology
more info
 
enables signaling receptor activity ISO
Inferred from Sequence Orthology
more info
 
enables signaling receptor binding ISO
Inferred from Sequence Orthology
more info
 
enables transmembrane-ephrin receptor activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
enables transmembrane-ephrin receptor activity ISO
Inferred from Sequence Orthology
more info
 
Process Evidence Code Pubs
involved_in B cell activation ISO
Inferred from Sequence Orthology
more info
 
involved_in angiogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in angiogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within animal organ morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in axon guidance IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within axon guidance ISO
Inferred from Sequence Orthology
more info
 
involved_in axon guidance ISO
Inferred from Sequence Orthology
more info
 
involved_in axonal fasciculation ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of axonogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within camera-type eye morphogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within cell morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in cellular response to amyloid-beta IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in cellular response to lipopolysaccharide IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in central nervous system projection neuron axonogenesis IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
acts_upstream_of_or_within central nervous system projection neuron axonogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in commissural neuron axon guidance ISO
Inferred from Sequence Orthology
more info
 
involved_in corpus callosum development ISO
Inferred from Sequence Orthology
more info
 
involved_in dendritic spine development ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within dendritic spine morphogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in dendritic spine morphogenesis ISO
Inferred from Sequence Orthology
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 hindbrain tangential cell migration IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in inner ear morphogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within learning ISO
Inferred from Sequence Orthology
more info
 
involved_in learning or memory ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of ERK1 and ERK2 cascade ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of NMDA glutamate receptor activity ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of Ras protein signal transduction ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within negative regulation of axonogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cell adhesion ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of cytokine production involved in inflammatory response IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of negative regulation of protein kinase activity ISO
Inferred from Sequence Orthology
more info
 
involved_in negative regulation of protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in neuron projection retraction ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within optic nerve morphogenesis ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within peptidyl-tyrosine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in peptidyl-tyrosine phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of B cell proliferation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of NMDA glutamate receptor activity 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 dendritic spine morphogenesis IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of gene expression IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of immunoglobulin production ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within positive regulation of long-term neuronal synaptic plasticity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of long-term synaptic potentiation ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of protein localization to cell surface IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of protein localization to plasma membrane IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of synapse assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in positive regulation of synapse assembly ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of synaptic plasticity ISO
Inferred from Sequence Orthology
more info
 
involved_in positive regulation of tumor necrosis factor production ISO
Inferred from Sequence Orthology
more info
 
involved_in postsynaptic membrane assembly IDA
Inferred from Direct Assay
more info
PubMed 
involved_in postsynaptic membrane assembly IEP
Inferred from Expression Pattern
more info
PubMed 
involved_in postsynaptic membrane assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within protein phosphorylation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of T-helper 17 type immune response IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within regulation of axonogenesis ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of behavioral fear response IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in regulation of blood coagulation ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of body fluid levels ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of filopodium assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within regulation of neuronal synaptic plasticity ISO
Inferred from Sequence Orthology
more info
 
involved_in regulation of receptor signaling pathway via JAK-STAT IDA
Inferred from Direct Assay
more info
PubMed 
involved_in regulation of synapse assembly ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within retinal ganglion cell axon guidance ISO
Inferred from Sequence Orthology
more info
 
involved_in roof of mouth development ISO
Inferred from Sequence Orthology
more info
 
involved_in tight junction assembly IDA
Inferred from Direct Assay
more info
PubMed 
involved_in trans-synaptic signaling by trans-synaptic complex, modulating synaptic transmission ISO
Inferred from Sequence Orthology
more info
 
acts_upstream_of_or_within transmembrane receptor protein tyrosine kinase signaling pathway ISO
Inferred from Sequence Orthology
more info
 
involved_in urogenital system development ISO
Inferred from Sequence Orthology
more info
 
involved_in vesicle-mediated intercellular transport IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
located_in Golgi apparatus IDA
Inferred from Direct Assay
more info
PubMed 
located_in axon ISO
Inferred from Sequence Orthology
more info
 
located_in cell surface IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite IDA
Inferred from Direct Assay
more info
PubMed 
located_in dendrite ISO
Inferred from Sequence Orthology
more info
 
located_in dendritic spine IDA
Inferred from Direct Assay
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
 
is_active_in hippocampal mossy fiber to CA3 synapse ISO
Inferred from Sequence Orthology
more info
 
is_active_in neuron projection IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in neuronal cell body IDA
Inferred from Direct Assay
more info
PubMed 
located_in neuronal cell body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
located_in plasma membrane ISO
Inferred from Sequence Orthology
more info
 
located_in postsynapse 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

Preferred Names
ephrin type-B receptor 2
Names
ephrin type-B receptor 2-like
NP_001120791.2
XP_038965983.1
XP_038965984.1
XP_038965985.1
XP_038965986.1

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_001127319.3NP_001120791.2  ephrin type-B receptor 2 precursor

    Status: VALIDATED

    Source sequence(s)
    JACYVU010000162
    Related
    ENSRNOP00000070517.2, ENSRNOT00000089574.2
    Conserved Domains (5) summary
    cd05065
    Location:616884
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:910980
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437520
    fn3; Fibronectin type III domain
    pfam14575
    Location:567617
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

RefSeqs of Annotated Genomes: Rattus norvegicus Annotation Release 108 details...Open this link in a new tab

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

Reference mRatBN7.2 Primary Assembly

Genomic

  1. NC_051340.1 Reference mRatBN7.2 Primary Assembly

    Range
    148889574..149077027 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039110058.1XP_038965986.1  ephrin type-B receptor 2 isoform X4

    Conserved Domains (5) summary
    cd05065
    Location:586854
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:880950
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:326421
    fn3; Fibronectin type III domain
    pfam14575
    Location:534587
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  2. XM_039110055.1XP_038965983.1  ephrin type-B receptor 2 isoform X1

    Conserved Domains (5) summary
    cd05065
    Location:618886
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:912982
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437521
    fn3; Fibronectin type III domain
    pfam14575
    Location:566619
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  3. XM_039110057.1XP_038965985.1  ephrin type-B receptor 2 isoform X3

    Conserved Domains (5) summary
    cd05065
    Location:617885
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:911981
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437520
    fn3; Fibronectin type III domain
    pfam14575
    Location:565618
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
  4. XM_039110056.1XP_038965984.1  ephrin type-B receptor 2 isoform X2

    UniProtKB/TrEMBL
    F1MAJ0
    Related
    ENSRNOP00000016983.7, ENSRNOT00000016983.8
    Conserved Domains (5) summary
    cd05065
    Location:617885
    PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
    cd09552
    Location:911981
    SAM_EPH-B2; SAM domain of EPH-B2 subfamily of tyrosine kinase receptors
    cd10477
    Location:19196
    EphR_LBD_B2; Ligand Binding Domain of Ephrin type-B Receptor 2
    pfam00041
    Location:437521
    fn3; Fibronectin type III domain
    pfam14575
    Location:568618
    EphA2_TM; Ephrin type-A receptor 2 transmembrane domain