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    EPHB3 EPH receptor B3 [ Homo sapiens (human) ]

    Gene ID: 2049, updated on 9-Dec-2024

    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; AllianceGenome:HGNC:3394
    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
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See EPHB3 in Genome Data Viewer
    Location:
    3q27.1
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (184561785..184582408)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (187377272..187397899)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (184279573..184300196)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1839 Neighboring gene long intergenic non-protein coding RNA 1840 Neighboring gene uncharacterized LOC124909469 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14968 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14969 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184281553-184282305 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184285640-184286154 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184286155-184286667 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184287010-184287956 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184287957-184288903 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184293707-184294309 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:184300020-184300586 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184300606-184301122 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184301123-184301638 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184301639-184302154 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184311799-184312421 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184312422-184313043 Neighboring gene Sharpr-MPRA regulatory region 3316 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184321402-184322134 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184327579-184328080 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184330970-184331470 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184331471-184331971 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184347519-184348190 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20912 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:184377157-184378119 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:184378120-184379081 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184381274-184381774 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184381775-184382275 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184390575-184391076 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184395936-184396440 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184396441-184396946 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184407744-184408244 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:184408245-184408745 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20913 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 Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
     
    enables GPI-linked ephrin receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables axon guidance receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables boss receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables brain-derived neurotrophic factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables ephrin receptor activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables epidermal growth factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables fibroblast growth factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables hepatocyte growth factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H2AXY142 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables histone H3Y41 kinase activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables insulin receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables insulin-like growth factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables macrophage colony-stimulating factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables placental growth factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables platelet-derived growth factor alpha-receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables platelet-derived growth factor beta-receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    enables protein tyrosine kinase collagen receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables stem cell factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    enables transmembrane-ephrin receptor activity IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables vascular endothelial growth factor receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    involved_in Kit signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in angiogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in axon guidance ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in axonal fasciculation ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in brain-derived neurotrophic factor receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cell migration IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in central nervous system projection neuron axonogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in chromatin remodeling IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in collagen-activated tyrosine kinase receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in corpus callosum development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in dendritic spine development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in dendritic spine morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in digestive tract morphogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in ephrin receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in ephrin receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in epidermal growth factor receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in fibroblast growth factor receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in hepatocyte growth factor receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in insulin receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in insulin-like growth factor receptor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in macrophage colony-stimulating factor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in platelet-derived growth factor receptor-alpha signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in platelet-derived growth factor receptor-beta signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of synapse assembly ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in protein autophosphorylation IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of GTPase activity IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in regulation of axonogenesis ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in regulation of cell-cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in retinal ganglion cell axon guidance IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in roof of mouth development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in substrate adhesion-dependent cell spreading IDA
    Inferred from Direct Assay
    more info
    PubMed 
    involved_in thymus development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in urogenital system development ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    involved_in vascular endothelial growth factor receptor-1 signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in vascular endothelial growth factor signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in cytosol TAS
    Traceable Author Statement
    more info
     
    is_active_in dendrite IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in extracellular region TAS
    Traceable Author Statement
    more info
     
    is_active_in plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     

    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)

    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_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, Q7Z740
      Related
      ENSP00000332118.2, ENST00000330394.3
      Conserved Domains (7) 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 ...
      pfam07699
      Location:284316
      Ephrin_rec_like; Putative ephrin-receptor like
      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: GCF_000001405.40-RS_2024_08

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

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

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      187377272..187397899
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)