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Aliases for EPHB3 Gene

Aliases for EPHB3 Gene

  • EPH Receptor B3 2 3 5
  • Tyrosine-Protein Kinase TYRO6 3 4
  • EPH-Like Tyrosine Kinase 2 3 4
  • Embryonic Kinase 2 3 4
  • EC 2.7.10.1 4 61
  • TYRO6 3 4
  • ETK2 3 4
  • HEK2 3 4
  • EK2 3 4
  • Ephrin Type-B Receptor 3 3
  • Human Embryo Kinase 2 3
  • EPH-Like Kinase 2 4
  • EC 2.7.10 61
  • EphB3 2

External Ids for EPHB3 Gene

Previous HGNC Symbols for EPHB3 Gene

  • ETK2

Previous GeneCards Identifiers for EPHB3 Gene

  • GC03P180979
  • GC03U900008
  • GC03P185682
  • GC03P185600
  • GC03P185762
  • GC03P184279
  • GC03P181691

Summaries for EPHB3 Gene

Entrez Gene Summary for EPHB3 Gene

  • Ephrin receptors and their ligands, the ephrins, mediate numerous developmental processes, particularly in the nervous system. Based on their structures and sequence relationships, ephrins are divided into the ephrin-A (EFNA) class, which are anchored to the membrane by a glycosylphosphatidylinositol linkage, and the ephrin-B (EFNB) class, which are transmembrane proteins. The Eph family of receptors are divided into two groups based on the similarity of their extracellular domain sequences and their affinities for binding ephrin-A and ephrin-B ligands. Ephrin receptors make up the largest subgroup of the receptor tyrosine kinase (RTK) family. This gene encodes a receptor for ephrin-B family members. [provided by RefSeq, Mar 2010]

GeneCards Summary for EPHB3 Gene

EPHB3 (EPH Receptor B3) is a Protein Coding gene. Diseases associated with EPHB3 include Spinal Cord Ependymoma. Among its related pathways are Activation of cAMP-Dependent PKA and GPCR Pathway. GO annotations related to this gene include transferase activity, transferring phosphorus-containing groups and protein tyrosine kinase activity. An important paralog of this gene is EPHB2.

UniProtKB/Swiss-Prot for EPHB3 Gene

  • Receptor tyrosine kinase which binds promiscuously transmembrane ephrin-B family ligands residing on adjacent cells, leading to contact-dependent bidirectional signaling into neighboring cells. The signaling pathway downstream of the receptor is referred to as forward signaling while the signaling pathway downstream of the ephrin ligand is referred to as reverse signaling. Generally has an overlapping and redundant function with EPHB2. Like EPHB2, functions in axon guidance during development regulating for instance the neurons forming the corpus callosum and the anterior commissure, 2 major interhemispheric connections between the temporal lobes of the cerebral cortex. In addition to its role in axon guidance plays also an important redundant role with other ephrin-B receptors in development and maturation of dendritic spines and the formation of excitatory synapses. Controls other aspects of development through regulation of cell migration and positioning. This includes angiogenesis, palate development and thymic epithelium development for instance. Forward and reverse signaling through the EFNB2/EPHB3 complex also regulate migration and adhesion of cells that tubularize the urethra and septate the cloaca. Finally, plays an important role in intestinal epithelium differentiation segregating progenitor from differentiated cells in the crypt.

Tocris Summary for EPHB3 Gene

  • Eph receptors are the largest family of receptor tyrosine kinases (RTKs) and are divided into two subclasses, EphA and EphB. Originally identified as mediators of axon guidance, Eph receptors are implicated in many processes, particularly cancer development and progression.

Gene Wiki entry for EPHB3 Gene

No data available for PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EPHB3 Gene

Genomics for EPHB3 Gene

Regulatory Elements for EPHB3 Gene

Enhancers for EPHB3 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH03F184773 0.8 Ensembl ENCODE 12.4 +211.9 211877 0.7 PKNOX1 ZNF512 FOXP2 FOS FOSL2 MNT EZH2 LINC01840 EPHB3 MAGEF1 CHRD THPO LOC105374253 VPS8
GH03F184582 1.3 Ensembl ENCODE 12.2 +22.0 21952 3.1 CTCF TAF1 SIN3A RAD21 FOSL1 ZFHX2 GLIS2 FOXK2 FOS FOSL2 EPHB3 LINC01840 MAGEF1 EIF4G1 FAM131A
GH03F184777 0.8 Ensembl ENCODE 12.2 +216.1 216117 0.6 CTCF ZNF654 PKNOX1 CEBPB TRIM22 REST RAD21 JUND PBX2 CEBPA EPHB3 LINC01840 MAGEF1 CHRD THPO LOC105374253 VPS8
GH03F184586 0.2 Ensembl 12 +25.3 25292 0.6 ZNF623 EPHB3 LINC01840 MAGEF1 EIF4G1 FAM131A
GH03F184590 0.8 Ensembl ENCODE 12 +31.1 31147 5.0 CTCF MAZ SP2 KLF17 OSR2 ZFP69B ZFHX2 GATA3 ZNF692 PRDM10 MAGEF1 EPHB3 LINC01840 THPO CHRD FAM131A EIF4G1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around EPHB3 on UCSC Golden Path with GeneCards custom track

Promoters for EPHB3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001381357 616 2401 HDGF PKNOX1 SIN3A ZNF2 YY1 ZNF121 SLC30A9 GLIS2 ZNF143 SP3

Genomic Location for EPHB3 Gene

Chromosome:
3
Start:
184,561,784 bp from pter
End:
184,582,409 bp from pter
Size:
20,626 bases
Orientation:
Plus strand

Genomic View for EPHB3 Gene

Genes around EPHB3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EPHB3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EPHB3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EPHB3 Gene

Proteins for EPHB3 Gene

  • Protein details for EPHB3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    P54753-EPHB3_HUMAN
    Recommended name:
    Ephrin type-B receptor 3
    Protein Accession:
    P54753
    Secondary Accessions:
    • Q7Z740

    Protein attributes for EPHB3 Gene

    Size:
    998 amino acids
    Molecular mass:
    110330 Da
    Quaternary structure:
    • Heterotetramer upon binding of the ligand. The heterotetramer is composed of an ephrin dimer and a receptor dimer. Oligomerization is probably required to induce biological responses (By similarity).

    Three dimensional structures from OCA and Proteopedia for EPHB3 Gene

neXtProt entry for EPHB3 Gene

Post-translational modifications for EPHB3 Gene

  • Phosphorylated. Autophosphorylates upon ligand-binding. Autophosphorylation on Tyr-614 is required for interaction with SH2 domain-containing proteins.
  • Glycosylation at Asn 351 and Asn 445
  • Modification sites at PhosphoSitePlus

Other Protein References for EPHB3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

Domains & Families for EPHB3 Gene

Suggested Antigen Peptide Sequences for EPHB3 Gene

Graphical View of Domain Structure for InterPro Entry

P54753

UniProtKB/Swiss-Prot:

EPHB3_HUMAN :
  • Contains 1 Eph LBD (Eph ligand-binding) domain.
  • Belongs to the protein kinase superfamily. Tyr protein kinase family. Ephrin receptor subfamily.
Domain:
  • Contains 1 Eph LBD (Eph ligand-binding) domain.
  • Contains 2 fibronectin type-III domains.
  • Contains 1 protein kinase domain.
  • Contains 1 SAM (sterile alpha motif) domain.
Family:
  • Belongs to the protein kinase superfamily. Tyr protein kinase family. Ephrin receptor subfamily.
genes like me logo Genes that share domains with EPHB3: view

Function for EPHB3 Gene

Molecular function for EPHB3 Gene

GENATLAS Biochemistry:
EPH-related tyrosine kinase receptor,binding ephrins B,expressed in projecting neurons and their target fields,involved in short-range contact-mediated exonal guidance,human embryonic kinase 2,expressed in various tissues
UniProtKB/Swiss-Prot CatalyticActivity:
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate.
UniProtKB/Swiss-Prot Function:
Receptor tyrosine kinase which binds promiscuously transmembrane ephrin-B family ligands residing on adjacent cells, leading to contact-dependent bidirectional signaling into neighboring cells. The signaling pathway downstream of the receptor is referred to as forward signaling while the signaling pathway downstream of the ephrin ligand is referred to as reverse signaling. Generally has an overlapping and redundant function with EPHB2. Like EPHB2, functions in axon guidance during development regulating for instance the neurons forming the corpus callosum and the anterior commissure, 2 major interhemispheric connections between the temporal lobes of the cerebral cortex. In addition to its role in axon guidance plays also an important redundant role with other ephrin-B receptors in development and maturation of dendritic spines and the formation of excitatory synapses. Controls other aspects of development through regulation of cell migration and positioning. This includes angiogenesis, palate development and thymic epithelium development for instance. Forward and reverse signaling through the EFNB2/EPHB3 complex also regulate migration and adhesion of cells that tubularize the urethra and septate the cloaca. Finally, plays an important role in intestinal epithelium differentiation segregating progenitor from differentiated cells in the crypt.

Enzyme Numbers (IUBMB) for EPHB3 Gene

Gene Ontology (GO) - Molecular Function for EPHB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0004672 protein kinase activity IEA --
GO:0004713 protein tyrosine kinase activity IEA --
GO:0004714 transmembrane receptor protein tyrosine kinase activity IEA --
GO:0005003 ephrin receptor activity IDA 8397371
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with EPHB3: view
genes like me logo Genes that share phenotypes with EPHB3: view

Animal Models for EPHB3 Gene

MGI Knock Outs for EPHB3:

Animal Model Products

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for EPHB3

Flow Cytometry Products

No data available for Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for EPHB3 Gene

Localization for EPHB3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EPHB3 Gene

Cell membrane; Single-pass type I membrane protein. Cell projection, dendrite.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for EPHB3 Gene COMPARTMENTS Subcellular localization image for EPHB3 gene
Compartment Confidence
extracellular 5
plasma membrane 5
cytosol 4
cytoskeleton 2
golgi apparatus 1
lysosome 1
nucleus 1
peroxisome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for EPHB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region TAS --
GO:0005829 cytosol TAS --
GO:0005886 plasma membrane TAS --
GO:0005887 integral component of plasma membrane IDA 8397371
GO:0016020 membrane IEA --
genes like me logo Genes that share ontologies with EPHB3: view

Pathways & Interactions for EPHB3 Gene

genes like me logo Genes that share pathways with EPHB3: view

SIGNOR curated interactions for EPHB3 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for EPHB3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001525 angiogenesis ISS --
GO:0001655 urogenital system development IEA,ISS --
GO:0006468 protein phosphorylation IEA --
GO:0007169 transmembrane receptor protein tyrosine kinase signaling pathway IEA --
GO:0007275 multicellular organism development IEA --
genes like me logo Genes that share ontologies with EPHB3: view

Drugs & Compounds for EPHB3 Gene

(2) Drugs for EPHB3 Gene - From: HMDB and Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
Adenosine triphosphate Approved Nutra 0

(1) Additional Compounds for EPHB3 Gene - From: HMDB

Name Synonyms Role CAS Number PubChem IDs PubMed IDs
ADP
  • Adenosindiphosphorsaeure
  • Adenosine 5'-pyrophosphate
  • Adenosine diphosphate
  • Adenosine pyrophosphate
  • Adenosine-5'-diphosphate
Full agonist, Agonist 58-64-0
genes like me logo Genes that share compounds with EPHB3: view

Transcripts for EPHB3 Gene

mRNA/cDNA for EPHB3 Gene

Unigene Clusters for EPHB3 Gene

EPH receptor B3:
Representative Sequences:

Inhibitory RNA Products

Clone Products

  • Addgene plasmids for EPHB3

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for EPHB3 Gene

ExUns: 1 ^ 2 ^ 3 ^ 4 ^ 5 ^ 6 ^ 7a · 7b ^ 8a · 8b · 8c ^ 9 ^ 10a · 10b ^ 11a · 11b · 11c ^ 12a · 12b ^ 13a · 13b ^ 14 ^ 15 ^ 16
SP1: - - -
SP2: - - -
SP3: -
SP4:
SP5:

Relevant External Links for EPHB3 Gene

GeneLoc Exon Structure for
EPHB3
ECgene alternative splicing isoforms for
EPHB3

Expression for EPHB3 Gene

mRNA expression in normal human tissues for EPHB3 Gene

mRNA differential expression in normal tissues according to GTEx for EPHB3 Gene

This gene is overexpressed in Skin - Sun Exposed (Lower leg) (x7.0), Skin - Not Sun Exposed (Suprapubic) (x5.9), and Esophagus - Mucosa (x4.3).

Protein differential expression in normal tissues from HIPED for EPHB3 Gene

This gene is overexpressed in Fetal Brain (22.4) and Salivary gland (16.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for EPHB3 Gene



NURSA nuclear receptor signaling pathways regulating expression of EPHB3 Gene:

EPHB3

SOURCE GeneReport for Unigene cluster for EPHB3 Gene:

Hs.2913

mRNA Expression by UniProt/SwissProt for EPHB3 Gene:

P54753-EPHB3_HUMAN
Tissue specificity: Ubiquitous.
genes like me logo Genes that share expression patterns with EPHB3: view

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery and Protein tissue co-expression partners for EPHB3 Gene

Orthologs for EPHB3 Gene

This gene was present in the common ancestor of animals.

Orthologs for EPHB3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia EPHB3 34 35
  • 99.44 (n)
dog
(Canis familiaris)
Mammalia EPHB3 34 35
  • 92.78 (n)
cow
(Bos Taurus)
Mammalia EPHB3 34 35
  • 92.51 (n)
mouse
(Mus musculus)
Mammalia Ephb3 34 16 35
  • 89.03 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia EPHB3 35
  • 89 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Ephb3 34
  • 88.95 (n)
chicken
(Gallus gallus)
Aves EPHB3 34 35
  • 80.52 (n)
lizard
(Anolis carolinensis)
Reptilia EPHB3 35
  • 86 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC100489199 34
  • 70.38 (n)
Str.3998 34
African clawed frog
(Xenopus laevis)
Amphibia LOC397834 34
zebrafish
(Danio rerio)
Actinopterygii EPHB3 (2 of 2) 35
  • 82 (a)
OneToMany
LOC555957 34
  • 74.77 (n)
ephb3a 35
  • 73 (a)
OneToMany
ek3 34
fruit fly
(Drosophila melanogaster)
Insecta Eph 36 35
  • 39 (a)
hop 36
  • 38 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 44 (a)
ManyToMany
-- 35
  • 42 (a)
ManyToMany
CSA.7809 35
  • 42 (a)
ManyToMany
CSA.1664 35
  • 40 (a)
ManyToMany
Species where no ortholog for EPHB3 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for EPHB3 Gene

ENSEMBL:
Gene Tree for EPHB3 (if available)
TreeFam:
Gene Tree for EPHB3 (if available)

Paralogs for EPHB3 Gene

Variants for EPHB3 Gene

Sequence variations from dbSNP and Humsavar for EPHB3 Gene

SNP ID Clin Chr 03 pos Sequence Context AA Info Type
rs371378866 A lung neuroendocrine carcinoma sample 184,579,932(+) TCCTC(A/C/T)GGGTA reference, synonymous-codon, missense
VAR_042176 A lung small cell carcinoma sample
rs10605644 -- 184,582,289(+) GCGCG(-/CGCG)TGTGT utr-variant-3-prime
rs111367076 -- 184,564,002(+) CTCCC(C/T)CCTTC intron-variant
rs111611525 -- 184,576,552(+) CGTAA(C/T)GTACT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for EPHB3 Gene

Variant ID Type Subtype PubMed ID
esv3598946 CNV gain 21293372
nsv461034 CNV loss 19166990
nsv508972 CNV insertion 20534489
nsv592671 CNV loss 21841781
nsv829814 CNV loss 17160897

Variation tolerance for EPHB3 Gene

Residual Variation Intolerance Score: 1.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 2.03; 37.32% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for EPHB3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
EPHB3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EPHB3 Gene

Disorders for EPHB3 Gene

MalaCards: The human disease database

(1) MalaCards diseases for EPHB3 Gene - From: DISEASES

Disorder Aliases PubMed IDs
spinal cord ependymoma
  • ependymal neoplasm of the spinal cord
- elite association - COSMIC cancer census association via MalaCards
Search EPHB3 in MalaCards View complete list of genes associated with diseases

Relevant External Links for EPHB3

Genetic Association Database (GAD)
EPHB3
Human Genome Epidemiology (HuGE) Navigator
EPHB3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
EPHB3
genes like me logo Genes that share disorders with EPHB3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for EPHB3 Gene

Publications for EPHB3 Gene

  1. Inhibition of integrin-mediated cell adhesion but not directional cell migration requires catalytic activity of EphB3 receptor tyrosine kinase. Role of Rho family small GTPases. (PMID: 15536074) Miao H. … Wang B. (J. Biol. Chem. 2005) 3 4 22 64
  2. PCR mediated detection of a new human receptor-tyrosine-kinase, HEK 2. (PMID: 8397371) Boehme B. … Ruebsamen-Waigmann H. (Oncogene 1993) 2 3 4 64
  3. Maternal genes and facial clefts in offspring: a comprehensive search for genetic associations in two population-based cleft studies from Scandinavia. (PMID: 20634891) Jugessur A. … Murray J.C. (PLoS ONE 2010) 3 46 64
  4. Over-expression of EphB3 enhances cell-cell contacts and suppresses tumor growth in HT-29 human colon cancer cells. (PMID: 19483190) Chiu S.T. … Hsieh F.J. (Carcinogenesis 2009) 3 22 64
  5. Candidate gene/loci studies in cleft lip/palate and dental anomalies finds novel susceptibility genes for clefts. (PMID: 18978678) Vieira A.R. … Marazita M.L. (Genet. Med. 2008) 3 46 64

Products for EPHB3 Gene

Sources for EPHB3 Gene

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