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    EFNB1 ephrin B1 [ Homo sapiens (human) ]

    Gene ID: 1947, updated on 9-Dec-2024

    Summary

    Official Symbol
    EFNB1provided by HGNC
    Official Full Name
    ephrin B1provided by HGNC
    Primary source
    HGNC:HGNC:3226
    See related
    Ensembl:ENSG00000090776 MIM:300035; AllianceGenome:HGNC:3226
    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
    CFND; CFNS; EFB1; EFL3; EPLG2; Elk-L; LERK2
    Summary
    The protein encoded by this gene is a type I membrane protein and a ligand of Eph-related receptor tyrosine kinases. It may play a role in cell adhesion and function in the development or maintenance of the nervous system. [provided by RefSeq, Jul 2008]
    Expression
    Ubiquitous expression in fat (RPKM 27.2), placenta (RPKM 17.2) and 23 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See EFNB1 in Genome Data Viewer
    Location:
    Xq13.1
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (68829021..68842160)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (67262362..67275507)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (68048864..68062003)

    Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ACTR3 pseudogene 2 Neighboring gene SERPINE1 mRNA binding protein 1 pseudogene 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68042984-68043484 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68043485-68043985 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chrX:68066477-68066977 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68070598-68071098 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68099266-68099854 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68114641-68115154 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68115155-68115666 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68123133-68123632 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68131927-68132591 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68132592-68133256 Neighboring gene ReSE screen-validated silencer GRCh37_chrX:68149462-68149665 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68209602-68210102 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29727 Neighboring gene uncharacterized LOC102723911 Neighboring gene uncharacterized LOC105373242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68253378-68254186 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68256271-68256772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68280594-68281495 Neighboring gene H3K4me1 hESC enhancer GRCh37_chrX:68314526-68315026 Neighboring gene uncharacterized LOC124905196

    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?

    HIV-1 interactions

    Replication interactions

    Interaction Pubs
    HIV-1 infection (VSV-G pseudotyped) of CEMT4 T cells downregulates plasma membrane expression of EFNB1 PubMed

    Go to the HIV-1, Human Interaction Database

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • MGC8782

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables ephrin receptor binding IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    enables ephrin receptor binding IDA
    Inferred from Direct Assay
    more info
    PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in T cell costimulation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in T cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in axon guidance IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cell adhesion TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in cell-cell signaling TAS
    Traceable Author Statement
    more info
    PubMed 
    involved_in embryonic pattern specification IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in ephrin receptor signaling pathway IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in neural crest cell migration IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in positive regulation of T cell proliferation IEA
    Inferred from Electronic Annotation
    more info
     
    acts_upstream_of_positive_effect regulation of autophagosome assembly IDA
    Inferred from Direct Assay
    more info
    PubMed 
    Component Evidence Code Pubs
    is_active_in cell surface IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
     
    located_in extracellular exosome HDA PubMed 
    is_active_in glutamatergic synapse IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in membrane raft IEA
    Inferred from Electronic Annotation
    more info
     
    located_in nucleus 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 IDA
    Inferred from Direct Assay
    more info
     
    located_in plasma membrane TAS
    Traceable Author Statement
    more info
     
    is_active_in presynaptic membrane IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in synapse ISS
    Inferred from Sequence or Structural Similarity
    more info
     

    General protein information

    Preferred Names
    ephrin-B1
    Names
    ELK ligand
    eph-related receptor tyrosine kinase ligand 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.

    Genomic

    1. NG_008887.1 RefSeqGene

      Range
      5025..18164
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_004429.5NP_004420.1  ephrin-B1 precursor

      See identical proteins and their annotated locations for NP_004420.1

      Status: REVIEWED

      Source sequence(s)
      BC016649, BM972960, CB132233
      Consensus CDS
      CCDS14391.1
      UniProtKB/Swiss-Prot
      D3DVU0, P98172
      Related
      ENSP00000204961.4, ENST00000204961.5
      Conserved Domains (1) summary
      cd10426
      Location:31165
      Ephrin-B_Ectodomain; Ectodomain of Ephrin B

    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_000023.11 Reference GRCh38.p14 Primary Assembly

      Range
      68829021..68842160
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060947.1 Alternate T2T-CHM13v2.0

      Range
      67262362..67275507
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)