Ephb3 Eph receptor B3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ephb3provided by MGI
Official Full Name: Eph receptor B3provided by MGI
Primary source: MGI:MGI:104770
See related: Ensembl:ENSMUSG00000005958 AllianceGenome:MGI:104770
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: Etk2; HEK2; MDK5; Sek4; Cek10; Tyro6; mDK-5
Summary: Enables axon guidance receptor activity. Involved in several processes, including corpus callosum development; neuron projection development; and tube morphogenesis. Acts upstream of or within central nervous system projection neuron axonogenesis and retinal ganglion cell axon guidance. Predicted to be located in cell projection and plasma membrane. Predicted to be integral component of membrane. Predicted to be part of receptor complex. Predicted to be active in neuron projection. Predicted to be integral component of plasma membrane. Is expressed in several structures, including alimentary system; central nervous system; embryo mesenchyme; heart; and sensory organ. Orthologous to human EPHB3 (EPH receptor B3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Broad expression in limb E14.5 (RPKM 26.4), lung adult (RPKM 20.1) and 20 other tissues See more
Orthologs: human all
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Genomic context

Location:: 16 B1; 16 12.62 cM

Exon count:: 16

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	16	NC_000082.7 (21023530..21042054)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	16	NC_000082.6 (21204620..21223309)

Chromosome 16 - NC_000082.7 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: 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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Peripheral T-cell responses of EphB2- and EphB3-deficient mice in a model of collagen-induced arthritis.
Title: Peripheral T-cell responses of EphB2- and EphB3-deficient mice in a model of collagen-induced arthritis.
Investigating the effects of compound paralogous EPHB receptor mutations on mouse facial development.
Title: Investigating the effects of compound paralogous EPHB receptor mutations on mouse facial development.
Thymus aging in mice deficient in either EphB2 or EphB3, two master regulators of thymic epithelium development.
Title: Thymus aging in mice deficient in either EphB2 or EphB3, two master regulators of thymic epithelium development.
although both EphB2 and EphB3 are necessary for cortical thymic epithelial maturation, the relevance of EphB3 is greater since EphB3-/- thymic cortex exhibits a more severe phenotype than that of EphB2-deficient thymuses
Title: EphB receptors, mainly EphB3, contribute to the proper development of cortical thymic epithelial cells.
that EphB3 signaling plays a deleterious role in synaptic stability and plasticity after traumatic brain injury
Title: EphB3 signaling propagates synaptic dysfunction in the traumatic injured brain.
Ephrin-B3 expression is localized to the lateral cortex extramodular zones in the developing inferior colliculus
Title: Graded and discontinuous EphA-ephrinB expression patterns in the developing auditory brainstem.
Mule also regulates protein levels of the receptor tyrosine kinase EphB3 by targeting it for proteasomal and lysosomal degradation.
Title: Mule Regulates the Intestinal Stem Cell Niche via the Wnt Pathway and Targets EphB3 for Proteasomal and Lysosomal Degradation.
A novel dependence receptor role of EphB3 in oligodendrocyte cell death after spinal cord injury.
Title: EphB3 receptors function as dependence receptors to mediate oligodendrocyte cell death following contusive spinal cord injury.
These results suggest a major function for forward signaling through EphB2 and, to a lesser extent, EphB3, in either colonizing progenitor cells or thymic stromal cells.
Title: EphB2 and EphB3 play an important role in the lymphoid seeding of murine adult thymus.
Conclude that EphB3 mediates cell death in the adult cortex through a novel dependence receptor-mediated cell death mechanism in the injured adult cortex and is attenuated following ephrinB3 stimulation.
Title: EphrinB3 blocks EphB3 dependence receptor functions to prevent cell death following traumatic brain injury.

Submit: New GeneRIF Correction See all GeneRIFs (26)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Targeted (2) 1 citation
Endonuclease-mediated (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Ephb3 (e-PCR), detects polymorphism
- UniSTS:526857

Ephb3 (e-PCR), detects polymorphism
- UniSTS:495889

RH70256 (e-PCR)
- UniSTS:9039

AW456895 (e-PCR)
- UniSTS:180881

Ephb3 (e-PCR), detects polymorphism
- UniSTS:527340

Z49086 (e-PCR)
- UniSTS:125935

Ephb3 (e-PCR), detects polymorphism
- UniSTS:266993

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables axon guidance receptor activity	IDA Inferred from Direct Assay more info	PubMed
enables ephrin receptor activity	ISO Inferred from Sequence Orthology more info
enables kinase activity	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IEA Inferred from Electronic Annotation more info
enables protein kinase activity	IEA Inferred from Electronic Annotation more info
enables protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables transferase activity	IEA Inferred from Electronic Annotation more info
enables transmembrane receptor protein tyrosine kinase activity	IEA Inferred from Electronic Annotation more info
enables transmembrane-ephrin receptor activity	IBA Inferred from Biological aspect of Ancestor more info
enables transmembrane-ephrin receptor activity	TAS Traceable Author Statement more info	PubMed

Process	Evidence Code	Pubs
involved_in angiogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axon guidance	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within axon guidance	IDA Inferred from Direct Assay more info	PubMed
involved_in axon guidance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axonal fasciculation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell migration	ISO Inferred from Sequence Orthology more info
involved_in cell surface receptor protein tyrosine kinase signaling pathway	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within central nervous system projection neuron axonogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in corpus callosum development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendritic spine development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in dendritic spine morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in digestive tract morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in ephrin receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in ephrin receptor signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within phosphorylation	IEA Inferred from Electronic Annotation more info
involved_in positive regulation of synapse assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein autophosphorylation	ISO Inferred from Sequence Orthology more info
involved_in protein phosphorylation	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of GTPase activity	ISO Inferred from Sequence Orthology more info
involved_in regulation of axonogenesis	IDA Inferred from Direct Assay more info	PubMed
involved_in regulation of cell-cell adhesion	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within retinal ganglion cell axon guidance	IDA Inferred from Direct Assay more info	PubMed
involved_in roof of mouth development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in substrate adhesion-dependent cell spreading	ISO Inferred from Sequence Orthology more info
involved_in thymus development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in urogenital system development	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in dendrite	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	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	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	TAS Traceable Author Statement more info	PubMed

General protein information

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Preferred Names: ephrin type-B receptor 3

Names: developmental kinase 5; tyrosine-protein kinase receptor SEK-4

NP_034273.1

EC 2.7.10.1

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_010143.2 → NP_034273.1 ephrin type-B receptor 3 precursor

See identical proteins and their annotated locations for NP_034273.1

Status: VALIDATED

Source sequence(s)

AC168061

Consensus CDS

CCDS28060.1

UniProtKB/Swiss-Prot

P54754, Q62214, Q91YS9

UniProtKB/TrEMBL

Q60669

Related

ENSMUSP00000006112.7, ENSMUST00000006112.7

Conserved Domains (8) summary

cd05065
Location:623 → 891

PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors

smart00454
Location:917 → 984

SAM; Sterile alpha motif

cd10478
Location:31 → 203

EphR_LBD_B3; Ligand Binding Domain of Ephrin type-B Receptor 3

cd00063
Location:468 → 537

FN3; Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all ...

pfam00041
Location:333 → 431

fn3; Fibronectin type III domain

pfam07714
Location:628 → 887

Pkinase_Tyr; Protein tyrosine kinase

pfam14575
Location:572 → 623

EphA2_TM; Ephrin type-A receptor 2 transmembrane domain

cl15755
Location:917 → 985

SAM_superfamily; SAM (Sterile alpha motif )