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    EPHB3 EPH receptor B3 [ Homo sapiens (human) ]

    Gene ID: 2049, updated on 15-Jun-2019

    Summary

    Official Symbol
    EPHB3provided by HGNC
    Official Full Name
    EPH receptor B3provided by HGNC
    Primary source
    HGNC:HGNC:3394
    See related
    Ensembl:ENSG00000182580 MIM:601839
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    EK2; ETK2; HEK2; TYRO6
    Summary
    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]
    Expression
    Broad expression in skin (RPKM 18.6), stomach (RPKM 10.2) and 15 other tissues See more
    Orthologs

    Genomic context

    See EPHB3 in Genome Data Viewer
    Location:
    3q27.1
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 3 NC_000003.12 (184561799..184582408)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (184279587..184300196)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene transmembrane epididymal protein 1 pseudogene Neighboring gene long intergenic non-protein coding RNA 1839 Neighboring gene long intergenic non-protein coding RNA 1840 Neighboring gene uncharacterized LOC107986163 Neighboring gene MAGE family member F1

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    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 biosystemAxon guidance / axon pathfinding is the process by which neurons send out axons to reach the correct targets. Growing axons have a highly motile structure at the growing tip called the growth cone, w...
    • Developmental Biology, organism-specific biosystem (from REACTOME)
      Developmental Biology, organism-specific biosystemAs a first step towards capturing the array of processes by which a fertilized egg gives rise to the diverse tissues of the body, examples of three kinds of processes have been annotated. These are a...
    • EPH-Ephrin signaling, organism-specific biosystem (from REACTOME)
      EPH-Ephrin signaling, organism-specific biosystemDuring the development process cell migration and adhesion are the main forces involved in morphing the cells into critical anatomical structures. The ability of a cell to migrate to its correct dest...
    • EPH-ephrin mediated repulsion of cells, organism-specific biosystem (from REACTOME)
      EPH-ephrin mediated repulsion of cells, organism-specific biosystemDespite high-affinity multimeric interaction between EPHs and ephrins (EFNs), the cellular response to EPH-EFN engagement is usually repulsion between the two cells and signal termination. These repu...
    • EPHB forward signaling, organism-specific biosystem (from Pathway Interaction Database)
      EPHB forward signaling, organism-specific biosystem
      EPHB forward signaling
    • EPHB-mediated forward signaling, organism-specific biosystem (from REACTOME)
      EPHB-mediated forward signaling, organism-specific biosystemMultiple EPHB receptors contribute directly to dendritic spine development and morphogenesis. These are more broadly involved in post-synaptic development through activation of focal adhesion kinase ...
    • Ephrin signaling, organism-specific biosystem (from REACTOME)
      Ephrin signaling, organism-specific biosystemThe interaction between ephrin (EFN) ligands and EPH receptors results not only in forward signaling through the EPH receptor, but also in 'reverse' signaling through the EFN ligand itself. Reverse s...
    • EphrinB-EPHB pathway, organism-specific biosystem (from Pathway Interaction Database)
      EphrinB-EPHB pathway, organism-specific biosystem
      EphrinB-EPHB pathway

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    axon guidance receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    ephrin receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    transmembrane receptor protein tyrosine kinase activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    transmembrane-ephrin receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    Process Evidence Code Pubs
    angiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    axonal fasciculation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    central nervous system projection neuron axonogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    corpus callosum development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    dendritic spine development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    dendritic spine morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    digestive tract morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    ephrin receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ephrin receptor signaling pathway TAS
    Traceable Author Statement
    more info
     
    peptidyl-tyrosine phosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    protein autophosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of GTPase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of axonogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    regulation of cell-cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    retinal ganglion cell axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    roof of mouth development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    substrate adhesion-dependent cell spreading IDA
    Inferred from Direct Assay
    more info
    PubMed 
    thymus development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    transmembrane receptor protein tyrosine kinase signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    urogenital system development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    Component Evidence Code Pubs
    cytosol TAS
    Traceable Author Statement
    more info
     
    dendrite IEA
    Inferred from Electronic Annotation
    more info
     
    extracellular region TAS
    Traceable Author Statement
    more info
     
    integral component of plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    integral component of plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    neuron projection IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    plasma membrane TAS
    Traceable Author Statement
    more info
     
    receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 

    General protein information

    Preferred Names
    ephrin type-B receptor 3
    Names
    EPH-like tyrosine kinase 2
    embryonic kinase 2
    human embryo kinase 2
    tyrosine-protein kinase TYRO6
    NP_004434.2

    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_004443.4NP_004434.2  ephrin type-B receptor 3 precursor

      See identical proteins and their annotated locations for NP_004434.2

      Status: REVIEWED

      Source sequence(s)
      AC112643, BC052968, CB993133, X75208
      Consensus CDS
      CCDS3268.1
      UniProtKB/Swiss-Prot
      P54753
      Related
      ENSP00000332118.2, ENST00000330394.3
      Conserved Domains (6) summary
      cd05065
      Location:628896
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd10478
      Location:39211
      EphR_LBD_B3; Ligand Binding Domain of Ephrin type-B Receptor 3
      cd00063
      Location:473542
      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:341436
      fn3; Fibronectin type III domain
      pfam14575
      Location:581628
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
      cl15755
      Location:922990
      SAM_superfamily; SAM (Sterile alpha motif )

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109

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

    Reference GRCh38.p13 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

      Range
      184561785..184582408
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
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