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Aliases for ZBED6 Gene

Aliases for ZBED6 Gene

  • Zinc Finger BED-Type Containing 6 2 3 5
  • Zinc Finger BED Domain-Containing Protein 6 3
  • MGR 3

External Ids for ZBED6 Gene

Previous GeneCards Identifiers for ZBED6 Gene

  • GC01U902782
  • GC01P203766

Summaries for ZBED6 Gene

Entrez Gene Summary for ZBED6 Gene

  • The protein encoded by this transposon-derived intronless gene is a transcriptional repressor that binds to the consensus sequence 5'-GCTCGC-3'. The encoded protein has been shown to repress IGF2 transcription. This gene is located within the first intron of the ZC3H11A gene. [provided by RefSeq, Jul 2016]

GeneCards Summary for ZBED6 Gene

ZBED6 (Zinc Finger BED-Type Containing 6) is a Protein Coding gene. GO annotations related to this gene include nucleic acid binding and protein dimerization activity. An important paralog of this gene is ZBED4.

UniProtKB/Swiss-Prot for ZBED6 Gene

  • Transcriptional repressor which binds to the consensus sequence 5-GCTCGC-3 and represses transcription of IGF2. May also regulate expression of other target genes containing this consensus binding site (By similarity).

Additional gene information for ZBED6 Gene

No data available for CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZBED6 Gene

Genomics for ZBED6 Gene

Regulatory Elements for ZBED6 Gene

Enhancers for ZBED6 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH01H204511 2 FANTOM5 Ensembl ENCODE dbSUPER 50.1 +721.4 721367 11.9 ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF416 ZNF143 ZNF548 SP3 MDM4 ZC3H11A SNRPE ZBED6 PPP1R15B PIK3C2B LOC101929459 ENSG00000236108 NFASC SNRPGP10
GH01H203526 1.4 Ensembl ENCODE dbSUPER 48 -268.9 -268897 1.3 HDGF PKNOX1 ZNF133 GLI4 ZNF2 ZBTB7B ZNF207 MCM3 YY2 ZNF488 ZC3H11A SNRPE MDM4 ZBED6 KLHL12 PPP1R15B KDM5B HNRNPA1P59 PRELP FMOD
GH01H202802 1.7 Ensembl ENCODE dbSUPER 31.4 -989.7 -989726 6.1 HDGF PKNOX1 MLX ZFP64 ARID4B SIN3A YBX1 FEZF1 DMAP1 ZNF2 ZC3H11A ZBED6 KDM5B IPO9 RNPEP PCAT6 LOC100506672 ENSG00000273478 HNRNPA1P59 ELF3-AS1
GH01H204193 1.2 Ensembl ENCODE 39.7 +401.1 401072 6.6 YBX3 PKNOX1 ZNF473 ZSCAN4 SIN3A YBX1 NFXL1 RAD21 ZNF155 TCF12 ZC3H11A MDM4 ZBED6 PPP1R15B SNRPE ETNK2 ERLNC1 RPL13AP11 ENSG00000231691 PLEKHA6
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZBED6 on UCSC Golden Path with GeneCards custom track

Promoters for ZBED6 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters

Genomic Locations for ZBED6 Gene

Genomic Locations for ZBED6 Gene
59,286 bases
Plus strand

Genomic View for ZBED6 Gene

Genes around ZBED6 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZBED6 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZBED6 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZBED6 Gene

Proteins for ZBED6 Gene

  • Protein details for ZBED6 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger BED domain-containing protein 6
    Protein Accession:

    Protein attributes for ZBED6 Gene

    979 amino acids
    Molecular mass:
    109973 Da
    Quaternary structure:
    No Data Available
    • Encoded by an exapted DNA transposon located in an intron of the ZC3H11A gene.

neXtProt entry for ZBED6 Gene

Post-translational modifications for ZBED6 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZBED6 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ZBED6 Gene

Domains & Families for ZBED6 Gene

Gene Families for ZBED6 Gene

Human Protein Atlas (HPA):
  • Predicted intracellular proteins
  • Transcription factors

Protein Domains for ZBED6 Gene

Suggested Antigen Peptide Sequences for ZBED6 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZBED6: view

No data available for UniProtKB/Swiss-Prot for ZBED6 Gene

Function for ZBED6 Gene

Molecular function for ZBED6 Gene

UniProtKB/Swiss-Prot Function:
Transcriptional repressor which binds to the consensus sequence 5-GCTCGC-3 and represses transcription of IGF2. May also regulate expression of other target genes containing this consensus binding site (By similarity).

Phenotypes From GWAS Catalog for ZBED6 Gene

Gene Ontology (GO) - Molecular Function for ZBED6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding IBA --
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding IBA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZBED6: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZBED6 Gene

Localization for ZBED6 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZBED6 Gene

Nucleus. Nucleus, nucleolus. Note=Located predominantly in the nucleolus but is also dispersed throughout the nucleus. {ECO:0000250 UniProtKB:D2EAC2}.

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 ZBED6 gene
Compartment Confidence
nucleus 4

Subcellular locations from the

Human Protein Atlas (HPA)
  • Microtubule organizing center (2)
  • Nucleoplasm (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZBED6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus ISS,IBA --
GO:0005730 nucleolus ISS --
genes like me logo Genes that share ontologies with ZBED6: view

Pathways & Interactions for ZBED6 Gene

SuperPathways for ZBED6 Gene

No Data Available

Interacting Proteins for ZBED6 Gene

STRING Interaction Network Preview (showing 1 interactants - click image to see details)
Selected Interacting proteins: P86452-ZBED6_HUMAN ENSP00000447879 for ZBED6 Gene via IID STRING

Gene Ontology (GO) - Biological Process for ZBED6 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006357 regulation of transcription from RNA polymerase II promoter IBA --
GO:0045892 negative regulation of transcription, DNA-templated ISS --
genes like me logo Genes that share ontologies with ZBED6: view

No data available for Pathways by source and SIGNOR curated interactions for ZBED6 Gene

Drugs & Compounds for ZBED6 Gene

No Compound Related Data Available

Transcripts for ZBED6 Gene

mRNA/cDNA for ZBED6 Gene

(1) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for ZBED6 Gene

Zinc finger, BED-type containing 6:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZBED6 Gene

No ASD Table

Relevant External Links for ZBED6 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZBED6 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZBED6 Gene

mRNA expression in normal human tissues for ZBED6 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZBED6 Gene

This gene is overexpressed in Islet of Langerhans (64.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for ZBED6 Gene

Protein tissue co-expression partners for ZBED6 Gene

NURSA nuclear receptor signaling pathways regulating expression of ZBED6 Gene:


SOURCE GeneReport for Unigene cluster for ZBED6 Gene:

genes like me logo Genes that share expression patterns with ZBED6: view

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZBED6 Gene

Orthologs for ZBED6 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZBED6 Gene

Organism Taxonomy Gene Similarity Type Details
(Canis familiaris)
Mammalia ZBED6 33 34
  • 91.73 (n)
(Bos Taurus)
Mammalia ZBED6 33 34
  • 91.1 (n)
(Mus musculus)
Mammalia Zbed6 33 16 34
  • 89.49 (n)
(Anolis carolinensis)
Reptilia ZBED6 34
  • 22 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia LOC101730718 33
  • 48.93 (n)
(Danio rerio)
Actinopterygii BX530070.1 34
  • 21 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG13775 34
  • 18 (a)
(Caenorhabditis elegans)
Secernentea C10A4.1 34
  • 18 (a)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 23 (a)
Species where no ortholog for ZBED6 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • 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)
  • chicken (Gallus gallus)
  • chimpanzee (Pan troglodytes)
  • 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)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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 ZBED6 Gene

Gene Tree for ZBED6 (if available)
Gene Tree for ZBED6 (if available)

Paralogs for ZBED6 Gene

Paralogs for ZBED6 Gene

genes like me logo Genes that share paralogs with ZBED6: view

Variants for ZBED6 Gene

Sequence variations from dbSNP and Humsavar for ZBED6 Gene

SNP ID Clin Chr 01 pos Sequence Context AA Info Type
rs1000870924 -- 203,801,526(+) TTTCA(A/G)ACTGA intron-variant, downstream-variant-500B, upstream-variant-2KB
rs1001048837 -- 203,795,692(+) CTGCT(A/G)CTGGG upstream-variant-2KB, utr-variant-5-prime
rs1001557029 -- 203,799,448(+) AAGCA(A/G)GACGA intron-variant, reference, synonymous-codon
rs1001562186 -- 203,798,487(+) TGCCA(A/G)CAAAG intron-variant, reference, missense
rs1002778423 -- 203,800,695(+) AGAGA(A/G/T)AAGAT intron-variant, upstream-variant-2KB, utr-variant-3-prime

Structural Variations from Database of Genomic Variants (DGV) for ZBED6 Gene

Variant ID Type Subtype PubMed ID
nsv520482 CNV loss 19592680

Variation tolerance for ZBED6 Gene

Gene Damage Index Score: 11.79; 93.38% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZBED6 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZBED6 Gene

Disorders for ZBED6 Gene

Relevant External Links for ZBED6

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for ZBED6 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZBED6 Gene

Publications for ZBED6 Gene

  1. ZBED6, a novel transcription factor derived from a domesticated DNA transposon regulates IGF2 expression and muscle growth. (PMID: 20016685) Markljung E … Andersson L (PLoS biology 2009) 2 3 4 60
  2. ZBED evolution: repeated utilization of DNA transposons as regulators of diverse host functions. (PMID: 23533661) Hayward A … Jern P (PloS one 2013) 2 3 60
  3. Studying phenotypic evolution in domestic animals: a walk in the footsteps of Charles Darwin. (PMID: 20375320) Andersson L (Cold Spring Harbor symposia on quantitative biology 2009) 2 3 60
  4. The DNA sequence and biological annotation of human chromosome 1. (PMID: 16710414) Gregory SG … Prigmore E (Nature 2006) 3 4 60
  5. Transcriptional modulator ZBED6 affects cell cycle and growth of human colorectal cancer cells. (PMID: 26056301) Akhtar Ali M … Sjöblom T (Proceedings of the National Academy of Sciences of the United States of America 2015) 3 60

Products for ZBED6 Gene

Sources for ZBED6 Gene

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