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    EFNB2 ephrin B2 [ Homo sapiens (human) ]

    Gene ID: 1948, updated on 2-Oct-2018

    Summary

    Official Symbol
    EFNB2provided by HGNC
    Official Full Name
    ephrin B2provided by HGNC
    Primary source
    HGNC:HGNC:3227
    See related
    Ensembl:ENSG00000125266 MIM:600527; Vega:OTTHUMG00000017324
    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
    HTKL; EPLG5; Htk-L; LERK5
    Summary
    This gene encodes a member of the ephrin (EPH) family. The ephrins and EPH-related receptors comprise the largest subfamily of receptor protein-tyrosine kinases and have been implicated in mediating developmental events, especially in the nervous system and in erythropoiesis. 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. This gene encodes an EFNB class ephrin which binds to the EPHB4 and EPHA3 receptors. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in lung (RPKM 8.5), colon (RPKM 7.4) and 23 other tissues See more
    Orthologs

    Genomic context

    See EFNB2 in Genome Data Viewer
    Location:
    13q33.3
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    109 current GRCh38.p12 (GCF_000001405.38) 13 NC_000013.11 (106489731..106535040, complement)
    105 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (107142079..107187388, complement)

    Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene ribosomal protein L35 pseudogene 7 Neighboring gene uncharacterized LOC105370346 Neighboring gene uncharacterized LOC112268109 Neighboring gene arginine and glutamate rich 1 Neighboring gene uncharacterized LOC105370348

    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 Jun 15 11:32:44 2016

    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 B reverse signaling, organism-specific biosystem (from Pathway Interaction Database)
      Ephrin B reverse signaling, organism-specific biosystem
      Ephrin B reverse signaling
    • 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
    • Spinal Cord Injury, organism-specific biosystem (from WikiPathways)
      Spinal Cord Injury, organism-specific biosystemThis pathway provides an overview of cell types, therapeutic targets, drugs, new proposed targets and pathways implicated in spinal cord injury. Spinal cord injury is a complex multistep process that...

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Homology

    Clone Names

    • MGC126226, MGC126227, MGC126228

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    ephrin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ephrin receptor binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    protein tyrosine kinase activity EXP
    Inferred from Experiment
    more info
    PubMed 
    virus receptor activity IEA
    Inferred from Electronic Annotation
    more info
     
    Process Evidence Code Pubs
    T cell costimulation IEA
    Inferred from Electronic Annotation
    more info
     
    anatomical structure morphogenesis TAS
    Traceable Author Statement
    more info
    PubMed 
    animal organ morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    blood vessel morphogenesis IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    cell adhesion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell migration involved in sprouting angiogenesis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    cell-cell signaling TAS
    Traceable Author Statement
    more info
    PubMed 
    ephrin receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    ephrin receptor signaling pathway IDA
    Inferred from Direct Assay
    more info
    PubMed 
    ephrin receptor signaling pathway TAS
    Traceable Author Statement
    more info
     
    lymph vessel development IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of keratinocyte proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    negative regulation of neuron projection development IDA
    Inferred from Direct Assay
    more info
    PubMed 
    nephric duct morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    peptidyl-tyrosine phosphorylation IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of aorta morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    positive regulation of cardiac muscle cell differentiation ISS
    Inferred from Sequence or Structural Similarity
    more info
    PubMed 
    positive regulation of cell proliferation IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    positive regulation of neuron death IDA
    Inferred from Direct Assay
    more info
    PubMed 
    presynapse assembly IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of chemotaxis IDA
    Inferred from Direct Assay
    more info
    PubMed 
    regulation of postsynaptic membrane neurotransmitter receptor levels IEA
    Inferred from Electronic Annotation
    more info
     
    regulation of postsynaptic neurotransmitter receptor internalization IEA
    Inferred from Electronic Annotation
    more info
     
    venous blood vessel morphogenesis IEA
    Inferred from Electronic Annotation
    more info
     
    viral entry into host cell IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    Schaffer collateral - CA1 synapse IEA
    Inferred from Electronic Annotation
    more info
     
    focal adhesion HDA PubMed 
    glutamatergic synapse IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of plasma membrane TAS
    Traceable Author Statement
    more info
    PubMed 
    integral component of postsynaptic density membrane IEA
    Inferred from Electronic Annotation
    more info
     
    integral component of presynaptic membrane IEA
    Inferred from Electronic Annotation
    more info
     
    plasma membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
    PubMed 
    plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 
    plasma membrane TAS
    Traceable Author Statement
    more info
     

    General protein information

    Preferred Names
    ephrin-B2
    Names
    HTK ligand
    LERK-5
    eph-related receptor tyrosine kinase ligand 5
    ligand of eph-related kinase 5

    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_004093.3NP_004084.1  ephrin-B2 precursor

      See identical proteins and their annotated locations for NP_004084.1

      Status: REVIEWED

      Source sequence(s)
      AL138689, BC105955, BQ029549, DR004737
      Consensus CDS
      CCDS9507.1
      UniProtKB/Swiss-Prot
      P52799
      Related
      ENSP00000245323.3, OTTHUMP00000018686, ENST00000245323.4, OTTHUMT00000045733
      Conserved Domains (1) summary
      cd10426
      Location:29165
      Ephrin-B_Ectodomain; Ectodomain of Ephrin B

    RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

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

    Reference GRCh38.p12 Primary Assembly

    Genomic

    1. NC_000013.11 Reference GRCh38.p12 Primary Assembly

      Range
      106489731..106535040 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_017020406.2XP_016875895.1  ephrin-B2 isoform X1

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