Aliases for EBNA1BP2 Gene

Aliases for EBNA1BP2 Gene

  • EBNA1 Binding Protein 2 2 3 5
  • EBP2 2 3 4
  • Probable RRNA-Processing Protein EBP2 3 4
  • EBNA1-Binding Protein 2 2 4
  • Nucleolar Protein P40 3 4
  • NOBP 2 3
  • P40 2 3
  • Nucleolar Protein P40; Homolog Of Yeast EBNA1-Binding Protein 3
  • Nuclear FGF3 Binding Protein 3
  • EBNA1BP2 5

External Ids for EBNA1BP2 Gene

Previous GeneCards Identifiers for EBNA1BP2 Gene

  • GC01M043572
  • GC01M042630
  • GC01M043059
  • GC01M043043
  • GC01M043298
  • GC01M043402
  • GC01M041749

Summaries for EBNA1BP2 Gene

GeneCards Summary for EBNA1BP2 Gene

EBNA1BP2 (EBNA1 Binding Protein 2) is a Protein Coding gene. Diseases associated with EBNA1BP2 include Robinow Syndrome, Autosomal Dominant 1 and Intracranial Hypotension.

UniProtKB/Swiss-Prot Summary for EBNA1BP2 Gene

Gene Wiki entry for EBNA1BP2 Gene

Additional gene information for EBNA1BP2 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for EBNA1BP2 Gene

Genomics for EBNA1BP2 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for EBNA1BP2 Gene
GeneHancer (GH) Identifier GH Type GH
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH01J043270 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 600.7 +0.2 214 2.2 CREB1 TEAD4 KDM1A POLR2A SCRT2 RFX1 EGR1 CTBP1 ZSCAN29 ZNF316 EBNA1BP2 TMEM125 lnc-EBNA1BP2-1 piR-34509 CFAP57 C1orf210 KDM4A-AS1
GH01J043272 Promoter/Enhancer 0.5 EPDnew dbSUPER 600.7 -1.3 -1321 0.1 EBNA1BP2 TMEM125 lnc-EBNA1BP2-1 piR-34509 C1orf210
GH01J043269 Enhancer 0.3 dbSUPER 600.7 +1.7 1676 0.3 CUX1 EBNA1BP2 TMEM125 lnc-EBNA1BP2-1 piR-34509 LOC105378685 CFAP57
GH01J043147 Promoter/Enhancer 1.5 Ensembl ENCODE CraniofacialAtlas 11.4 +122.9 122935 1.2 PRDM10 RFX1 PRDM1 PATZ1 ZNF501 HDAC1 ZNF341 ZNF561 RFX3 KLF9 CFAP57 EBNA1BP2 FAM183A lnc-FAM183A-2 SLC2A1-AS1
GH01J043293 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 12.2 -24.1 -24137 3.8 SP1 JUND RELA IKZF2 SOX6 ARID3A DPF2 RELB RUNX3 EZH2 MED8 EBNA1BP2 MPL CDC20 ENSG00000234694 ELOVL1 MED8-AS1 SZT2 FAM183A ATP6V0B
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around EBNA1BP2 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for EBNA1BP2

Top Transcription factor binding sites by QIAGEN in the EBNA1BP2 gene promoter:
  • AML1a
  • FOXO4
  • Gfi-1
  • IRF-7A
  • Nkx5-1
  • PPAR-gamma1
  • PPAR-gamma2
  • YY1

Genomic Locations for EBNA1BP2 Gene

Genomic Locations for EBNA1BP2 Gene
106,763 bases
Minus strand
106,763 bases
Minus strand

Genomic View for EBNA1BP2 Gene

Genes around EBNA1BP2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
EBNA1BP2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for EBNA1BP2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for EBNA1BP2 Gene

Proteins for EBNA1BP2 Gene

  • Protein details for EBNA1BP2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Probable rRNA-processing protein EBP2
    Protein Accession:
    Secondary Accessions:
    • Q96A66

    Protein attributes for EBNA1BP2 Gene

    306 amino acids
    Molecular mass:
    34852 Da
    Quaternary structure:
    • Specifically interacts with EBV EBNA1. The EBNA1-EBP2 interaction is important for the stable segregation of EBV episomes during cell division (PubMed:10074103). Interacts with WDR46.

neXtProt entry for EBNA1BP2 Gene

Post-translational modifications for EBNA1BP2 Gene

  • Ubiquitination at Lys33, Lys187, Lys209, and Lys218
  • Modification sites at PhosphoSitePlus

Other Protein References for EBNA1BP2 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for EBNA1BP2 Gene

Domains & Families for EBNA1BP2 Gene

Gene Families for EBNA1BP2 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for EBNA1BP2 Gene

  • Eukaryotic rRNA processing

Suggested Antigen Peptide Sequences for EBNA1BP2 Gene

GenScript: Design optimal peptide antigens:
  • Nucleolar protein p40 (EBP2_HUMAN)
  • EBNA1BP2 protein (Q6IB29_HUMAN)

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the EBP2 family.
  • Belongs to the EBP2 family.
genes like me logo Genes that share domains with EBNA1BP2: view

Function for EBNA1BP2 Gene

Molecular function for EBNA1BP2 Gene

UniProtKB/Swiss-Prot Function:
Required for the processing of the 27S pre-rRNA.

Phenotypes From GWAS Catalog for EBNA1BP2 Gene

Gene Ontology (GO) - Molecular Function for EBNA1BP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22658674
GO:0005515 protein binding IPI 28514442
genes like me logo Genes that share ontologies with EBNA1BP2: view
genes like me logo Genes that share phenotypes with EBNA1BP2: view

Animal Model Products

CRISPR Products

miRNA for EBNA1BP2 Gene

miRTarBase miRNAs that target EBNA1BP2

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for EBNA1BP2

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for EBNA1BP2 Gene

Localization for EBNA1BP2 Gene

Subcellular locations from UniProtKB/Swiss-Prot for EBNA1BP2 Gene

Nucleus, nucleolus. Note=Associated with the nucleolus in an RNA-dependent manner.

Subcellular locations from

Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for EBNA1BP2 gene
Compartment Confidence
nucleus 5
cytosol 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
endoplasmic reticulum 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for EBNA1BP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005730 nucleolus IDA 16263084
GO:0030687 preribosome, large subunit precursor IBA 21873635
GO:0034399 nuclear periphery IBA 21873635
genes like me logo Genes that share ontologies with EBNA1BP2: view

Pathways & Interactions for EBNA1BP2 Gene

PathCards logo

SuperPathways for EBNA1BP2 Gene

No Data Available

Gene Ontology (GO) - Biological Process for EBNA1BP2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006364 rRNA processing IBA 21873635
GO:0042254 ribosome biogenesis IEA --
GO:0042273 ribosomal large subunit biogenesis IBA 21873635
genes like me logo Genes that share ontologies with EBNA1BP2: view

No data available for Pathways by source and SIGNOR curated interactions for EBNA1BP2 Gene

Drugs & Compounds for EBNA1BP2 Gene

No Compound Related Data Available

Transcripts for EBNA1BP2 Gene

mRNA/cDNA for EBNA1BP2 Gene

15 NCBI additional mRNA sequence :
9 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for EBNA1BP2

Alternative Splicing Database (ASD) splice patterns (SP) for EBNA1BP2 Gene

ExUns: 1a · 1b ^ 2a · 2b ^ 3a · 3b ^ 4a · 4b ^ 5 ^ 6a · 6b · 6c ^ 7 ^ 8a · 8b ^ 9a · 9b ^ 10a · 10b
SP1: - -
SP2: - -
SP3: -
SP4: -
SP5: - - - - - - - - - - -

Relevant External Links for EBNA1BP2 Gene

GeneLoc Exon Structure for

Expression for EBNA1BP2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for EBNA1BP2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for EBNA1BP2 Gene

This gene is overexpressed in Lung (18.8), Adrenal (12.0), Breast (7.1), and Peripheral blood mononuclear cells (6.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for EBNA1BP2 Gene

Protein tissue co-expression partners for EBNA1BP2 Gene

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for EBNA1BP2

SOURCE GeneReport for Unigene cluster for EBNA1BP2 Gene:


mRNA Expression by UniProt/SwissProt for EBNA1BP2 Gene:

Tissue specificity: Ubiquitous.

Evidence on tissue expression from TISSUES for EBNA1BP2 Gene

  • Skin(4.8)
  • Liver(4.4)
  • Nervous system(4.2)
  • Lung(3.6)
  • Intestine(3.3)
  • Pancreas(3)
  • Kidney(2.4)
genes like me logo Genes that share expression patterns with EBNA1BP2: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for EBNA1BP2 Gene

Orthologs for EBNA1BP2 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for EBNA1BP2 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia EBNA1BP2 31
  • 100 (a)
(Canis familiaris)
Mammalia EBNA1BP2 30 31
  • 89.29 (n)
(Bos Taurus)
Mammalia EBNA1BP2 30 31
  • 88.96 (n)
(Rattus norvegicus)
Mammalia Ebna1bp2 30
  • 85.53 (n)
(Mus musculus)
Mammalia Ebna1bp2 30 17 31
  • 84.32 (n)
(Ornithorhynchus anatinus)
Mammalia EBNA1BP2 31
  • 70 (a)
(Monodelphis domestica)
Mammalia EBNA1BP2 31
  • 70 (a)
(Gallus gallus)
Aves EBNA1BP2 30 31
  • 69.71 (n)
(Anolis carolinensis)
Reptilia EBNA1BP2 31
  • 69 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC101730438 30
  • 68.31 (n)
African clawed frog
(Xenopus laevis)
Amphibia LOC398544 30
(Danio rerio)
Actinopterygii ebna1bp2 30 31
  • 61.39 (n)
wufa12d07 30
Rainbow Trout
(Oncorhynchus mykiss)
Actinopterygii Omy.7195 30
Fruit Fly
(Drosophila melanogaster)
Insecta CG1542 30 31 32
  • 53.33 (n)
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011383 30
  • 50.88 (n)
(Caenorhabditis elegans)
Secernentea C18A3.3 30 31 32
  • 50.78 (n)
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes EBP2 31 33
  • 23 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea CSA.4836 31
  • 43 (a)
Species where no ortholog for EBNA1BP2 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • Alpha proteobacteria (Wolbachia pipientis)
  • Amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • 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)
  • Rice (Oryza sativa)
  • Rice Blast Fungus (Magnaporthe grisea)
  • Schistosome Parasite (Schistosoma mansoni)
  • Sea Anemone (Nematostella vectensis)
  • Sea Vase (Ciona intestinalis)
  • 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 EBNA1BP2 Gene

Gene Tree for EBNA1BP2 (if available)
Gene Tree for EBNA1BP2 (if available)
Evolutionary constrained regions (ECRs) for EBNA1BP2: view image

Paralogs for EBNA1BP2 Gene

No data available for Paralogs for EBNA1BP2 Gene

Variants for EBNA1BP2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for EBNA1BP2 Gene

SNP ID Clinical significance and condition Chr 01 pos Variation AA Info Type
777906 Benign: not provided 43,171,575(-) G/C MISSENSE_VARIANT
789258 Benign: not provided 43,164,644(-) T/A MISSENSE_VARIANT
rs7163 - p.Arg223His

Additional dbSNP identifiers (rs#s) for EBNA1BP2 Gene

Structural Variations from Database of Genomic Variants (DGV) for EBNA1BP2 Gene

Variant ID Type Subtype PubMed ID
nsv829693 CNV loss 17160897

Variation tolerance for EBNA1BP2 Gene

Residual Variation Intolerance Score: 47.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 5.10; 69.07% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for EBNA1BP2 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for EBNA1BP2 Gene

Disorders for EBNA1BP2 Gene

MalaCards: The human disease database

(3) MalaCards diseases for EBNA1BP2 Gene - From: DISEASES

Disorder Aliases PubMed IDs
robinow syndrome, autosomal dominant 1
  • drs1
intracranial hypotension
robinow syndrome
  • robinow dwarfism
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with EBNA1BP2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for EBNA1BP2 Gene

Publications for EBNA1BP2 Gene

  1. EBP2, a human protein that interacts with sequences of the Epstein-Barr virus nuclear antigen 1 important for plasmid maintenance. (PMID: 10074103) Shire K … Frappier L (Journal of virology 1999) 2 3 4 23
  2. Proteomic and targeted analytical identification of BXDC1 and EBNA1BP2 as dynamic scaffold proteins in the nucleolus. (PMID: 19170763) Hirano Y … Horigome T (Genes to cells : devoted to molecular & cellular mechanisms 2009) 3 4
  3. Ectopic EBP2 expression enhances cyclin E1 expression and induces chromosome instability in HEK293 stable clones. (PMID: 18959818) Lee MC … Tsai-Wu JJ (BMB reports 2008) 3 23
  4. Zcchc8 is a glycogen synthase kinase-3 substrate that interacts with RNA-binding proteins. (PMID: 16263084) Gustafson MP … Clurman BE (Biochemical and biophysical research communications 2005) 3 23
  5. EBP2 plays a key role in Epstein-Barr virus mitotic segregation and is regulated by aurora family kinases. (PMID: 15923612) Kapoor P … Frappier L (Molecular and cellular biology 2005) 3 23

Products for EBNA1BP2 Gene

Sources for EBNA1BP2 Gene