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Aliases for ZBED4 Gene

Aliases for ZBED4 Gene

  • Zinc Finger BED-Type Containing 4 2 3 5
  • KIAA0637 4

External Ids for ZBED4 Gene

Previous GeneCards Identifiers for ZBED4 Gene

  • GC22P046837
  • GC22P048466
  • GC22P048568
  • GC22P048635
  • GC22P050247
  • GC22P033189

Summaries for ZBED4 Gene

GeneCards Summary for ZBED4 Gene

ZBED4 (Zinc Finger BED-Type Containing 4) 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 ZBED6.

No data available for Entrez Gene Summary , UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZBED4 Gene

Genomics for ZBED4 Gene

Regulatory Elements for ZBED4 Gene

Enhancers for ZBED4 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
GH22F050339 0.4 ENCODE 26.6 +486.4 486382 2.1 HDGF ZNF493 ZNF2 KLF7 ZNF488 ZNF264 ZNF585B GLIS1 MYNN NBN ALG12 TUBGCP6 ENSG00000272836 ZBED4 ENSG00000273192 LOC105373095 DENND6B PPP6R2 TRABD
GH22F049957 1.1 Ensembl ENCODE 23.9 +109.2 109203 11.7 HDGF PKNOX1 CREB3L1 MLX ARID4B SIN3A DMAP1 ZNF2 YY1 ZNF207 ALG12 ZBED4 ENSG00000273192 LOC105373095 ENSG00000272836 TRABD PIM3 LOC100420885 LOC101928719 MIR6821
GH22F050188 1.1 FANTOM5 ENCODE 19.7 +337.2 337238 5.6 HDGF PKNOX1 ARID4B SIN3A YBX1 ZNF2 ZNF143 ZNF263 MCM3 SP3 TUBGCP6 MAPK12 ALG12 ZBED4 ENSG00000272836 HDAC10 LOC105373095 LOC101928719 MAPK11 PLXNB2
GH22F050626 0.5 ENCODE 18.2 +774.2 774181 2.4 HDGF ZNF493 ARID4B SIN3A YBX1 GLI4 ZNF2 GLIS2 KLF7 MCM3 TUBGCP6 ENSG00000272836 ZBED4 ARSA ALG12 LOC105373095 DENND6B CPT1B MAPK8IP2 CHKB
GH22F050183 1.2 FANTOM5 ENCODE 15.9 +332.0 331982 3.9 ATF1 ARID4B DMAP1 ZNF48 ZNF2 YY1 ZNF121 GTF3C2 GLIS2 ZNF143 ALG12 TRABD LOC105373095 SELENOO ZBED4 LOC101928719 ENSG00000273192 ENSG00000272836 LOC100420885 PANX2
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around ZBED4 on UCSC Golden Path with GeneCards custom track

Promoters for ZBED4 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000620089 158 2801 ATF1 ARID4B SIN3A DMAP1 ZNF48 ZNF2 GLIS2 ZNF143 ZNF263 SP3

Genomic Location for ZBED4 Gene

Chromosome:
22
Start:
49,853,842 bp from pter
End:
49,890,078 bp from pter
Size:
36,237 bases
Orientation:
Plus strand

Genomic View for ZBED4 Gene

Genes around ZBED4 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZBED4 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZBED4 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZBED4 Gene

Proteins for ZBED4 Gene

  • Protein details for ZBED4 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    O75132-ZBED4_HUMAN
    Recommended name:
    Zinc finger BED domain-containing protein 4
    Protein Accession:
    O75132
    Secondary Accessions:
    • B2RZH1
    • Q1ECU0
    • Q9UGG8

    Protein attributes for ZBED4 Gene

    Size:
    1171 amino acids
    Molecular mass:
    130322 Da
    Quaternary structure:
    • Homodimer.
    SequenceCaution:
    • Sequence=BAA31612.2; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

neXtProt entry for ZBED4 Gene

Post-translational modifications for ZBED4 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZBED4 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ZBED4 Gene

Domains & Families for ZBED4 Gene

Gene Families for ZBED4 Gene

Protein Domains for ZBED4 Gene

Suggested Antigen Peptide Sequences for ZBED4 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

O75132

UniProtKB/Swiss-Prot:

ZBED4_HUMAN :
  • Contains 4 BED-type zinc fingers.
Similarity:
  • Contains 4 BED-type zinc fingers.
genes like me logo Genes that share domains with ZBED4: view

Function for ZBED4 Gene

Gene Ontology (GO) - Molecular Function for ZBED4 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:0005515 protein binding IPI 25416956
genes like me logo Genes that share ontologies with ZBED4: view
genes like me logo Genes that share phenotypes with ZBED4: view

Animal Model Products

miRNA for ZBED4 Gene

miRTarBase miRNAs that target ZBED4

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZBED4 Gene

Localization for ZBED4 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZBED4 Gene

Nucleus. Cytoplasm.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for ZBED4 Gene COMPARTMENTS Subcellular localization image for ZBED4 gene
Compartment Confidence
nucleus 5
cytosol 2

Gene Ontology (GO) - Cellular Components for ZBED4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IDA 19369242
GO:0005737 cytoplasm IDA 19369242
genes like me logo Genes that share ontologies with ZBED4: view

Pathways & Interactions for ZBED4 Gene

SuperPathways for ZBED4 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZBED4 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006357 regulation of transcription from RNA polymerase II promoter IBA --
genes like me logo Genes that share ontologies with ZBED4: view

No data available for Pathways by source and SIGNOR curated interactions for ZBED4 Gene

Transcripts for ZBED4 Gene

mRNA/cDNA for ZBED4 Gene

(1) REFSEQ mRNAs :
(6) Additional mRNA sequences :
(128) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for ZBED4 Gene

Zinc finger, BED-type containing 4:
Representative Sequences:

Inhibitory RNA Products

Clone Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZBED4 Gene

No ASD Table

Relevant External Links for ZBED4 Gene

GeneLoc Exon Structure for
ZBED4
ECgene alternative splicing isoforms for
ZBED4

Expression for ZBED4 Gene

mRNA expression in normal human tissues for ZBED4 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZBED4 Gene

This gene is overexpressed in Heart (67.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZBED4 Gene



Protein tissue co-expression partners for ZBED4 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZBED4 Gene:

ZBED4

SOURCE GeneReport for Unigene cluster for ZBED4 Gene:

Hs.475208

mRNA Expression by UniProt/SwissProt for ZBED4 Gene:

O75132-ZBED4_HUMAN
Tissue specificity: Widely expressed with highest levels in testis, kidney and spinal cord and brain corpus callosum. Expressed in the retina, found in the cone photoreceptors, Mueller cells, cone pedicles and in the innermost retinal layer.
genes like me logo Genes that share expression patterns with ZBED4: view

Primer Products

No data available for mRNA differential expression in normal tissues for ZBED4 Gene

Orthologs for ZBED4 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZBED4 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZBED4 34 35
  • 98.95 (n)
mouse
(Mus musculus)
Mammalia Zbed4 35
  • 83 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ZBED4 35
  • 82 (a)
OneToOne
dog
(Canis familiaris)
Mammalia ZBED4 34 35
  • 81.64 (n)
rat
(Rattus norvegicus)
Mammalia Zbed4 34
  • 80.86 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ZBED4 35
  • 76 (a)
OneToOne
chicken
(Gallus gallus)
Aves ZBED4 34 35
  • 72.96 (n)
lizard
(Anolis carolinensis)
Reptilia ZBED4 35
  • 75 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia zbed4 34
  • 65.72 (n)
Str.6285 34
zebrafish
(Danio rerio)
Actinopterygii zbed4 34 35
  • 60.61 (n)
Dr.17906 34
fruit fly
(Drosophila melanogaster)
Insecta CG13775 35
  • 21 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea K09A11.1 35
  • 22 (a)
ManyToMany
C53D6.6 35
  • 17 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 35
  • 28 (a)
OneToMany
Species where no ortholog for ZBED4 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • 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 ZBED4 Gene

ENSEMBL:
Gene Tree for ZBED4 (if available)
TreeFam:
Gene Tree for ZBED4 (if available)

Paralogs for ZBED4 Gene

Paralogs for ZBED4 Gene

genes like me logo Genes that share paralogs with ZBED4: view

Variants for ZBED4 Gene

Sequence variations from dbSNP and Humsavar for ZBED4 Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type
rs1033665 -- 49,858,479(+) AACAC(A/G)AATAT intron-variant
rs1033666 -- 49,859,135(+) GGCAG(C/T)GGCAC intron-variant
rs10568114 -- 49,873,688(+) GTGAT(-/ATG)AGGTG intron-variant
rs1061331 -- 49,888,330(+) AAGTT(A/G)TTTTG intron-variant, utr-variant-3-prime
rs10626874 -- 49,861,003(+) GATCT(-/CCT)GAGCT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ZBED4 Gene

Variant ID Type Subtype PubMed ID
esv1290042 CNV deletion 17803354
esv2724709 CNV deletion 23290073
esv2724710 CNV deletion 23290073
esv2724711 CNV deletion 23290073
esv2724712 CNV deletion 23290073
esv3558370 CNV deletion 23714750
esv3568484 CNV loss 25503493
esv997091 CNV deletion 20482838
nsv1072652 CNV deletion 25765185
nsv1126636 CNV deletion 24896259
nsv1130792 CNV deletion 24896259
nsv1136697 CNV deletion 24896259
nsv191151 CNV deletion 16902084
nsv191243 CNV deletion 16902084
nsv471221 CNV loss 18288195
nsv829328 CNV gain 20364138

Variation tolerance for ZBED4 Gene

Residual Variation Intolerance Score: 14.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.93; 35.91% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZBED4 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZBED4

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZBED4 Gene

Disorders for ZBED4 Gene

Relevant External Links for ZBED4

Genetic Association Database (GAD)
ZBED4
Human Genome Epidemiology (HuGE) Navigator
ZBED4
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
ZBED4

No disorders were found for ZBED4 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZBED4 Gene

Publications for ZBED4 Gene

  1. ZBED4, a BED-type zinc-finger protein in the cones of the human retina. (PMID: 19369242) Saghizadeh M. … Farber D.B. (Invest. Ophthalmol. Vis. Sci. 2009) 3 4 22 64
  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 64
  3. Support of association between BRD1 and both schizophrenia and bipolar affective disorder. (PMID: 19693800) Nyegaard M. … rglum A.D. (Am. J. Med. Genet. B Neuropsychiatr. Genet. 2010) 3 46 64
  4. Human DNA replication-related element binding factor (hDREF) self- association via hATC domain is necessary for its nuclear accumulation and DNA binding. (PMID: 17209048) Yamashita D. … Hirose F. (J. Biol. Chem. 2007) 3 4 64
  5. A genome annotation-driven approach to cloning the human ORFeome. (PMID: 15461802) Collins J.E. … Dunham I. (Genome Biol. 2004) 3 4 64

Products for ZBED4 Gene

Sources for ZBED4 Gene

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