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Aliases for EBF3 Gene

Aliases for EBF3 Gene

  • Early B-Cell Factor 3 2 3 4 5
  • Olf-1/EBF-Like 2 3 4
  • EBF-3 3 4
  • O/E-2 3 4
  • COE3 3 4
  • OE-2 3 4

External Ids for EBF3 Gene

Previous GeneCards Identifiers for EBF3 Gene

  • GC00U908396
  • GC10M131109
  • GC20P002669
  • GC10M131524
  • GC10M131633
  • GC10M125212

Summaries for EBF3 Gene

Entrez Gene Summary for EBF3 Gene

  • This gene encodes a member of the early B-cell factor (EBF) family of DNA binding transcription factors. EBF proteins are involved in B-cell differentiation, bone development and neurogenesis, and may also function as tumor suppressors. The encoded protein inhibits cell survival through the regulation of genes involved in cell cycle arrest and apoptosis, and aberrant methylation or deletion of this gene may play a role in multiple malignancies including glioblastoma multiforme and gastric carcinoma. [provided by RefSeq, Sep 2011]

GeneCards Summary for EBF3 Gene

EBF3 (Early B-Cell Factor 3) is a Protein Coding gene. GO annotations related to this gene include protein dimerization activity. An important paralog of this gene is EBF2.

UniProtKB/Swiss-Prot for EBF3 Gene

  • Transcriptional activator which recognizes variations of the palindromic sequence 5-ATTCCCNNGGGAATT-3.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for EBF3 Gene

Genomics for EBF3 Gene

Regulatory Elements for EBF3 Gene

Enhancers for EBF3 Gene
GeneHancer Identifier Score Enhancer Sources TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Other Gene Targets for Enhancer

Enhancers around EBF3 on UCSC Golden Path with GeneCards custom track

Genomic Location for EBF3 Gene

129,835,232 bp from pter
129,964,281 bp from pter
129,050 bases
Minus strand

Genomic View for EBF3 Gene

Genes around EBF3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EBF3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EBF3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EBF3 Gene

Proteins for EBF3 Gene

  • Protein details for EBF3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Transcription factor COE3
    Protein Accession:
    Secondary Accessions:
    • A0AUY1
    • Q5T6H9
    • Q9H4W5

    Protein attributes for EBF3 Gene

    596 amino acids
    Molecular mass:
    64864 Da
    Quaternary structure:
    • Forms either a homodimer or a heterodimer with a related family member.

    Three dimensional structures from OCA and Proteopedia for EBF3 Gene

    Alternative splice isoforms for EBF3 Gene


neXtProt entry for EBF3 Gene

Proteomics data for EBF3 Gene at MOPED

Post-translational modifications for EBF3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for EBF3 Gene

ENSEMBL proteins:
REFSEQ proteins:

Antibody Products

  • Abcam antibodies for EBF3

No data available for DME Specific Peptides for EBF3 Gene

Domains & Families for EBF3 Gene

Suggested Antigen Peptide Sequences for EBF3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Contains 1 IPT/TIG domain.
  • Belongs to the COE family.
  • Contains 1 IPT/TIG domain.
  • Belongs to the COE family.
genes like me logo Genes that share domains with EBF3: view

No data available for Gene Families for EBF3 Gene

Function for EBF3 Gene

Molecular function for EBF3 Gene

UniProtKB/Swiss-Prot Function:
Transcriptional activator which recognizes variations of the palindromic sequence 5-ATTCCCNNGGGAATT-3.

Gene Ontology (GO) - Molecular Function for EBF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding IBA --
GO:0005515 protein binding IEA --
genes like me logo Genes that share ontologies with EBF3: view
genes like me logo Genes that share phenotypes with EBF3: view

Animal Models for EBF3 Gene

MGI Knock Outs for EBF3:

Animal Model Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for EBF3 Gene

Localization for EBF3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EBF3 Gene

Subcellular locations from

Jensen Localization Image for EBF3 Gene COMPARTMENTS Subcellular localization image for EBF3 gene
Compartment Confidence
nucleus 4
cytosol 2

No data available for Gene Ontology (GO) - Cellular Components for EBF3 Gene

Pathways & Interactions for EBF3 Gene

SuperPathways for EBF3 Gene

No Data Available

Gene Ontology (GO) - Biological Process for EBF3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0045944 positive regulation of transcription from RNA polymerase II promoter IBA --
genes like me logo Genes that share ontologies with EBF3: view

No data available for Pathways by source and SIGNOR curated interactions for EBF3 Gene

Drugs & Compounds for EBF3 Gene

No Compound Related Data Available

Transcripts for EBF3 Gene

Unigene Clusters for EBF3 Gene

Early B-cell factor 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for EBF3 Gene

No ASD Table

Relevant External Links for EBF3 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for EBF3 Gene

mRNA expression in normal human tissues for EBF3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for EBF3 Gene

This gene is overexpressed in Adipose - Subcutaneous (x6.6) and Adipose - Visceral (Omentum) (x4.9).

Protein differential expression in normal tissues from HIPED for EBF3 Gene

This gene is overexpressed in Fetal Brain (55.7) and Peripheral blood mononuclear cells (13.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MOPED, and MaxQB for EBF3 Gene

SOURCE GeneReport for Unigene cluster for EBF3 Gene Hs.591374

mRNA Expression by UniProt/SwissProt for EBF3 Gene

Tissue specificity: Expressed in brain.
genes like me logo Genes that share expression patterns with EBF3: view

Protein tissue co-expression partners for EBF3 Gene

Primer Products

Orthologs for EBF3 Gene

This gene was present in the common ancestor of animals.

Orthologs for EBF3 Gene

Organism Taxonomy Gene Similarity Type Details
(Mus musculus)
Mammalia Ebf3 35
  • 94.25 (n)
  • 99.46 (a)
Ebf3 16
Ebf3 36
  • 92 (a)
(Pan troglodytes)
Mammalia EBF3 35
  • 99.7 (n)
  • 99.82 (a)
EBF3 36
  • 69 (a)
(Rattus norvegicus)
Mammalia Ebf3 35
  • 93.89 (n)
  • 99.46 (a)
(Bos Taurus)
Mammalia EBF3 36
  • 90 (a)
(Canis familiaris)
Mammalia EBF3 36
  • 91 (a)
(Monodelphis domestica)
Mammalia EBF3 36
  • 59 (a)
(Ornithorhynchus anatinus)
Mammalia EBF3 36
  • 79 (a)
(Gallus gallus)
Aves EBF3 36
  • 84 (a)
(Anolis carolinensis)
Reptilia EBF3 36
  • 95 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia ebf3 35
  • 83.55 (n)
  • 97.1 (a)
MGC75916 35
African clawed frog
(Xenopus laevis)
Amphibia Xl.632 35
(Danio rerio)
Actinopterygii ebf3 35
  • 81.6 (n)
  • 96.89 (a)
ebf3 36
  • 97 (a)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011437 35
  • 67.67 (n)
  • 78.37 (a)
fruit fly
(Drosophila melanogaster)
Insecta kn 35
  • 68.43 (n)
  • 79.13 (a)
kn 36
  • 51 (a)
(Caenorhabditis elegans)
Secernentea unc-3 36
  • 55 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 52 (a)
Species with no ortholog for EBF3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for EBF3 Gene

Gene Tree for EBF3 (if available)
Gene Tree for EBF3 (if available)

Paralogs for EBF3 Gene

Paralogs for EBF3 Gene

(4) SIMAP similar genes for EBF3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with EBF3: view

Variants for EBF3 Gene

Sequence variations from dbSNP and Humsavar for EBF3 Gene

SNP ID Clin Chr 10 pos Sequence Context AA Info Type
rs1541128 -- 129,926,886(-) GTTTC(A/G)GGGAA intron-variant
rs8217 -- 129,835,456(+) GGGCA(C/T)TGACT utr-variant-3-prime
rs1613727 -- 129,948,222(-) ggagt(C/G)caatg intron-variant
rs1750286 -- 129,920,224(-) ATACT(C/G)GCCCT intron-variant
rs477493 -- 129,922,908(-) CGGGG(G/T)GGCCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for EBF3 Gene

Variant ID Type Subtype PubMed ID
nsv832023 CNV Gain+Loss 17160897
nsv896103 CNV Loss 21882294
nsv896104 CNV Loss 21882294
esv1978602 CNV Deletion 18987734
nsv825621 CNV Gain 20364138
nsv7618 CNV Insertion 18451855
dgv181n67 CNV Gain 20364138
nsv825626 CNV Loss 20364138
nsv896105 CNV Loss 21882294
nsv832024 CNV Loss 17160897

Variation tolerance for EBF3 Gene

Residual Variation Intolerance Score: 6.78% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.98; 20.14% of all genes are more intolerant (likely to be disease-causing)

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Relevant External Links for EBF3 Gene

Disorders for EBF3 Gene

Relevant External Links for EBF3

Genetic Association Database (GAD)
Human Genome Epidemiology (HuGE) Navigator
Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for EBF3 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for EBF3 Gene

Publications for EBF3 Gene

  1. Integrated genomic and epigenomic analyses pinpoint biallelic gene inactivation in tumors. (PMID: 12355068) Zardo G. … Costello J.F. (Nat. Genet. 2002) 2 3 4 67
  2. Frequently methylated tumor suppressor genes in head and neck squamous cell carcinoma. (PMID: 18559491) Bennett K.L. … Plass C. (Cancer Res. 2008) 3 23
  3. Early B-cell factor 3 (EBF3) is a novel tumor suppressor gene with promoter hypermethylation in pediatric acute myeloid leukemia. (PMID: 25609158) Tao Y.F. … Pan J. (J. Exp. Clin. Cancer Res. 2015) 3
  4. Proteomic analyses reveal distinct chromatin-associated and soluble transcription factor complexes. (PMID: 25609649) Li X. … Chen J. (Mol. Syst. Biol. 2015) 3
  5. A genome-wide association study of sleep habits and insomnia. (PMID: 23728906) Byrne E.M. … Wray N.R. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2013) 3

Products for EBF3 Gene

Sources for EBF3 Gene