This gene encodes a protein containing DBF4-type zinc finger domains. This gene is imprinted and paternally expressed in lymphocytes but is more stochastically expressed in the placenta. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2015] See more...

Aliases for ZDBF2 Gene

Aliases for ZDBF2 Gene

  • Zinc Finger DBF-Type Containing 2 2 3 5
  • DBF4-Type Zinc Finger-Containing Protein 2 3 4
  • KIAA1571 4
  • Slx9 3

External Ids for ZDBF2 Gene

Previous GeneCards Identifiers for ZDBF2 Gene

  • GC02P206848
  • GC02P207139
  • GC02P198990

Summaries for ZDBF2 Gene

Entrez Gene Summary for ZDBF2 Gene

  • This gene encodes a protein containing DBF4-type zinc finger domains. This gene is imprinted and paternally expressed in lymphocytes but is more stochastically expressed in the placenta. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Nov 2015]

GeneCards Summary for ZDBF2 Gene

ZDBF2 (Zinc Finger DBF-Type Containing 2) is a Protein Coding gene. Diseases associated with ZDBF2 include Nasopalpebral Lipoma-Coloboma Syndrome and Beckwith-Wiedemann Syndrome. Gene Ontology (GO) annotations related to this gene include nucleic acid binding.

Additional gene information for ZDBF2 Gene

No data available for CIViC Summary , UniProtKB/Swiss-Prot Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZDBF2 Gene

Genomics for ZDBF2 Gene

GeneHancer (GH) Regulatory Elements for ZDBF2 Gene

Promoters and enhancers for ZDBF2 Gene
GeneHancer (GH) Identifier GH Type GH
Score
GH Sources Gene Association Score Total Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor
Binding Sites
Gene Targets
GH02J206081 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas dbSUPER 500.1 -189.9 -189903 7.3 ZBTB40 EP300 CTCF SIN3A TCF12 POLR2G NCOR1 PHF8 ZFX ZIC2 INO80D ENSG00000227946 ZDBF2 NDUFS1 ENSG00000231955 GCSHP3 EEF1B2 SNORA41 SNORD51 GPR1
GH02J206274 Promoter/Enhancer 1.9 EPDnew Ensembl ENCODE CraniofacialAtlas 500.7 +1.5 1459 4.2 ZBTB40 EP300 POLR2G PHF8 ZIC2 POLR2A ZNF423 ZBTB26 SAP30 EZH2 ZDBF2 GPR1 lnc-ZDBF2-1
GH02J206443 Promoter/Enhancer 1.8 EPDnew Ensembl ENCODE CraniofacialAtlas 10.6 +169.2 169160 2.4 EP300 CTCF ZIC2 GABPA ZBTB26 EZH2 POLR2A HDAC2 ZNF341 KLF9 ADAM23 ZDBF2 ENSG00000227946 piR-31311-017
GH02J206229 Enhancer 1.1 Ensembl ENCODE 10.9 -44.3 -44340 1.4 ZSCAN5C TEAD4 ZNF639 ZIC2 ZNF423 ZNF623 TRIM28 ATF2 ZEB1 HDAC2 ZDBF2 ENSG00000159186 RF00100-070 RN7SKP200 lnc-GPR1-1 lnc-ZDBF2-3 GPR1-AS
GH02J206246 Enhancer 0.6 Ensembl 12.4 -28.7 -28740 2.6 ZNF384 NBN SPI1 ELF1 IRF4 NFATC3 ZNF664 TBX21 ATF7 BHLHE40 GPR1 ZDBF2 RN7SKP200 SNORA41 EEF1B2 SNORD51 NDUFS1 ADAM23 MDH1B RF00017-3415
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZDBF2 on UCSC Golden Path with GeneCards custom track

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZDBF2

Top Transcription factor binding sites by QIAGEN in the ZDBF2 gene promoter:
  • Brachyury
  • Evi-1
  • IRF-1
  • p300
  • Sox5
  • SRF
  • SRF (504 AA)
  • USF-1
  • USF1

Genomic Locations for ZDBF2 Gene

Genomic Locations for ZDBF2 Gene
chr2:206,274,641-206,314,438
(GRCh38/hg38)
Size:
39,798 bases
Orientation:
Plus strand
chr2:207,139,387-207,179,148
(GRCh37/hg19)
Size:
39,762 bases
Orientation:
Plus strand

Genomic View for ZDBF2 Gene

Genes around ZDBF2 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZDBF2 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZDBF2 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZDBF2 Gene

Proteins for ZDBF2 Gene

  • Protein details for ZDBF2 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9HCK1-ZDBF2_HUMAN
    Recommended name:
    DBF4-type zinc finger-containing protein 2
    Protein Accession:
    Q9HCK1
    Secondary Accessions:
    • Q6ZNP7
    • Q6ZSN8

    Protein attributes for ZDBF2 Gene

    Size:
    2354 amino acids
    Molecular mass:
    265618 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC85454.1; Type=Erroneous initiation; Evidence={ECO:0000305};

neXtProt entry for ZDBF2 Gene

Post-translational modifications for ZDBF2 Gene

  • Ubiquitination at Lys2133
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for ZDBF2 Gene

Domains & Families for ZDBF2 Gene

Gene Families for ZDBF2 Gene

HGNC:
Human Protein Atlas (HPA):
  • Predicted intracellular proteins

Protein Domains for ZDBF2 Gene

InterPro:
ProtoNet:

Suggested Antigen Peptide Sequences for ZDBF2 Gene

GenScript: Design optimal peptide antigens:
  • DBF4-type zinc finger-containing protein 2 (ZDBF2_HUMAN)
genes like me logo Genes that share domains with ZDBF2: view

No data available for Graphical View of Domain Structure and UniProtKB/Swiss-Prot for ZDBF2 Gene

Function for ZDBF2 Gene

Phenotypes From GWAS Catalog for ZDBF2 Gene

Gene Ontology (GO) - Molecular Function for ZDBF2 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZDBF2: view
genes like me logo Genes that share phenotypes with ZDBF2: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZDBF2

No data available for Molecular function , Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZDBF2 Gene

Localization for ZDBF2 Gene

Subcellular locations from

COMPARTMENTS
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 ZDBF2 gene
Compartment Confidence
nucleus 4
cytosol 3
plasma membrane 1
mitochondrion 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Nucleoplasm (2)
See all subcellular structures

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for ZDBF2 Gene

Pathways & Interactions for ZDBF2 Gene

PathCards logo

SuperPathways for ZDBF2 Gene

No Data Available

Interacting Proteins for ZDBF2 Gene

;

Gene Ontology (GO) - Biological Process for ZDBF2 Gene

None

No data available for Pathways by source and SIGNOR curated interactions for ZDBF2 Gene

Drugs & Compounds for ZDBF2 Gene

No Compound Related Data Available

Transcripts for ZDBF2 Gene

mRNA/cDNA for ZDBF2 Gene

3 REFSEQ mRNAs :
7 NCBI additional mRNA sequence :
10 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 ZDBF2

Alternative Splicing Database (ASD) splice patterns (SP) for ZDBF2 Gene

No ASD Table

Relevant External Links for ZDBF2 Gene

GeneLoc Exon Structure for
ZDBF2

Expression for ZDBF2 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZDBF2 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZDBF2 Gene

This gene is overexpressed in Fetal testis (25.2), Oral epithelium (13.0), Heart (10.1), and Fetal heart (8.6).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ZDBF2 Gene



Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZDBF2

SOURCE GeneReport for Unigene cluster for ZDBF2 Gene:

Hs.110489

Evidence on tissue expression from TISSUES for ZDBF2 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with ZDBF2: view

Primer Products

No data available for mRNA differential expression in normal tissues , Protein tissue co-expression partners , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZDBF2 Gene

Orthologs for ZDBF2 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ZDBF2 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia ZDBF2 31 30
  • 99.41 (n)
OneToOne
dog
(Canis familiaris)
Mammalia ZDBF2 31 30
  • 76.75 (n)
OneToOne
cow
(Bos Taurus)
Mammalia ZDBF2 31 30
  • 76.75 (n)
OneToOne
mouse
(Mus musculus)
Mammalia Zdbf2 17 31 30
  • 70.16 (n)
rat
(Rattus norvegicus)
Mammalia Zdbf2 30
  • 69.38 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia ZDBF2 31
  • 24 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia ZDBF2 31
  • 19 (a)
OneToOne
chicken
(Gallus gallus)
Aves ZDBF2 31
  • 28 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 31
  • 31 (a)
OneToMany
-- 31
  • 14 (a)
OneToMany
Species where no ortholog for ZDBF2 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)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • 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 squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for ZDBF2 Gene

ENSEMBL:
Gene Tree for ZDBF2 (if available)
TreeFam:
Gene Tree for ZDBF2 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZDBF2: view image

Paralogs for ZDBF2 Gene

No data available for Paralogs for ZDBF2 Gene

Variants for ZDBF2 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZDBF2 Gene

SNP ID Clinical significance and condition Chr 02 pos Variation AA Info Type
707885 Benign: not provided 206,309,685(+) G/A SYNONYMOUS_VARIANT
709368 Benign: not provided 206,305,316(+) G/A MISSENSE_VARIANT
710547 Likely Benign: not provided 206,310,453(+) A/G SYNONYMOUS_VARIANT
717439 Benign: not provided 206,305,278(+) G/A SYNONYMOUS_VARIANT
719071 Benign: not provided 206,308,046(+) A/G MISSENSE_VARIANT

Additional dbSNP identifiers (rs#s) for ZDBF2 Gene

Structural Variations from Database of Genomic Variants (DGV) for ZDBF2 Gene

Variant ID Type Subtype PubMed ID
esv3451203 CNV insertion 20981092
nsv834516 CNV gain 17160897

Variation tolerance for ZDBF2 Gene

Residual Variation Intolerance Score: 92.5% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.67; 65.92% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZDBF2 Gene

Human Gene Mutation Database (HGMD)
ZDBF2
SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZDBF2

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZDBF2 Gene

Disorders for ZDBF2 Gene

MalaCards: The human disease database

(2) MalaCards diseases for ZDBF2 Gene - From: DISEASES and GeneCards

- elite association - COSMIC cancer census association via MalaCards
Search ZDBF2 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for ZDBF2

genes like me logo Genes that share disorders with ZDBF2: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZDBF2 Gene

Publications for ZDBF2 Gene

  1. Prediction of the coding sequences of unidentified human genes. XVIII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10997877) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 2000) 2 3 4 54
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 54
  3. Oncogenic functions of protein kinase D2 and D3 in regulating multiple cancer-related pathways in breast cancer. (PMID: 30652415) Liu Y … Chen L (Cancer medicine 2019) 3 54
  4. MYC Protein Interactome Profiling Reveals Functionally Distinct Regions that Cooperate to Drive Tumorigenesis. (PMID: 30415952) Kalkat M … Penn LZ (Molecular cell 2018) 3 54
  5. VIRMA mediates preferential m6A mRNA methylation in 3'UTR and near stop codon and associates with alternative polyadenylation. (PMID: 29507755) Yue Y … Liu J (Cell discovery 2018) 3 54

Products for ZDBF2 Gene

Sources for ZDBF2 Gene