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    ephb4b eph receptor B4b [ Danio rerio (zebrafish) ]

    Gene ID: 30691, updated on 9-Dec-2024

    Summary

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    Official Symbol
    ephb4bprovided by ZNC
    Official Full Name
    eph receptor B4bprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-990415-65
    See related
    Ensembl:ENSDARG00000027112 AllianceGenome:ZFIN:ZDB-GENE-990415-65
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Danio rerio
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
    Also known as
    rtk8; cb417; EphB-rtk8
    Summary
    Predicted to enable transmembrane receptor protein tyrosine kinase activity. Involved in somitogenesis. Acts upstream of or within Kupffer's vesicle development. Predicted to be located in membrane. Predicted to be part of receptor complex. Predicted to be active in plasma membrane. Is expressed in several structures, including anterior neural keel; central nervous system; forerunner cell group; neural tube; and tail bud. Human ortholog(s) of this gene implicated in central conducting lymphatic anomaly. Orthologous to human EPHB4 (EPH receptor B4). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
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    Genomic context

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    See ephb4b in Genome Data Viewer
    Location:
    chromosome: 23
    Exon count:
    17
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 23 NC_007134.7 (44349830..44400916)
    105 previous assembly GRCz10 (GCF_000002035.5) 23 NC_007134.6 (44544426..44595512)

    Chromosome 23 - NC_007134.7Genomic Context describing neighboring genes Neighboring gene methylphosphate capping enzyme b Neighboring gene discs, large homolog 4b (Drosophila) Neighboring gene eukaryotic translation initiation factor 4E family member 2 related sequence 1 Neighboring gene centrobin, centrosomal BRCA2 interacting protein

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
    • BioProject: PRJEB1986
    • Analysis date: Fri Dec 8 19:48:10 2017

    Bibliography

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    Related articles in PubMed

    1. Pathogenic variant in EPHB4 results in central conducting lymphatic anomaly. Li D, et al. Hum Mol Genet, 2018 Sep 15. PMID 29905864, Free PMC Article
    2. Characterisation of five novel zebrafish Eph-related receptor tyrosine kinases suggests roles in patterning the neural plate. Cooke JE, et al. Dev Genes Evol, 1997 May. PMID 27747378
    3. Eph signaling is required for segmentation and differentiation of the somites. Durbin L, et al. Genes Dev, 1998 Oct 1. PMID 9765210, Free PMC Article
    4. Genome editing of factor X in zebrafish reveals unexpected tolerance of severe defects in the common pathway. Hu Z, et al. Blood, 2017 Aug 3. PMID 28576875, Free PMC Article
    5. Eph/ephrin signaling maintains the boundary of dorsal forerunner cell cluster during morphogenesis of the zebrafish embryonic left-right organizer. Zhang J, et al. Development, 2016 Jul 15. PMID 27287807, Free PMC Article

    See all (17) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Eph receptor gene ephb4b is highly expressed in dorsal forerunner cells (DFCs) whereas ephrin ligand genes, including efnb2b, are expressed in cells next to the DFC cluster during zebrafish gastrulation.
      Title: Eph/ephrin signaling maintains the boundary of dorsal forerunner cell cluster during morphogenesis of the zebrafish embryonic left-right organizer.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by ZFIN

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ephrin receptor activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleotide binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    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 IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables transmembrane receptor protein tyrosine kinase activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within Kupffer's vesicle development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within cell surface receptor protein tyrosine kinase signaling pathway IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in ephrin receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in multicellular organism development IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    acts_upstream_of_or_within phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within protein phosphorylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in somitogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    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 IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of receptor complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    ephrin type-B receptor 4b
    Names
    eph-like receptor tyrosine kinase 8
    eph-like receptor tyrosine kinase rtk8
    unp164
    NP_571492.1

    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)

    1. NM_131417.1 → NP_571492.1  ephrin type-B receptor 4b precursor

      See identical proteins and their annotated locations for NP_571492.1

      Status: PROVISIONAL

      Source sequence(s)
      AJ005029
      UniProtKB/Swiss-Prot
      B3DIW7, F1QR66, O73878
      Related
      ENSDARP00000088414.3, ENSDART00000097644.5
      Conserved Domains (5) summary
      cd05065
      Location:608 → 876
      PTKc_EphR_B; Catalytic domain of the Protein Tyrosine Kinases, Class EphB Ephrin Receptors
      cd00063
      Location:327 → 431
      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 ...
      pfam14575
      Location:544 → 608
      EphA2_TM; Ephrin type-A receptor 2 transmembrane domain
      cl02704
      Location:25 → 198
      EphR_LBD; Ligand Binding Domain of Ephrin Receptors
      cl15755
      Location:906 → 969
      SAM_superfamily; SAM (Sterile alpha motif )

    RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

    Reference GRCz11 Primary Assembly

    Genomic

    1. NC_007134.7 Reference GRCz11 Primary Assembly

      Range
      44349830..44400916
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    O73878.2 GenPept UniProtKB/Swiss-Prot:O73878

    Gene LinkOut

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