Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ZNF253 Gene

Aliases for ZNF253 Gene

  • Zinc Finger Protein 253 2 3 5
  • Zinc Finger Protein 411 2 3 4
  • Bone Marrow Zinc Finger 1 3 4
  • ZNF411 3 4
  • BMZF-1 3 4
  • BMZF1 3 4
  • DNA-Binding Protein 3

External Ids for ZNF253 Gene

Previous HGNC Symbols for ZNF253 Gene

  • ZNF411

Previous GeneCards Identifiers for ZNF253 Gene

  • GC19U990224
  • GC19P020380
  • GC19P019821
  • GC19P019850
  • GC19P019978

Summaries for ZNF253 Gene

GeneCards Summary for ZNF253 Gene

ZNF253 (Zinc Finger Protein 253) is a Protein Coding gene. Among its related pathways are Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is ZNF737.

UniProtKB/Swiss-Prot for ZNF253 Gene

  • May function as a transcription factor. Seem to have a transcriptional repression activity.

Additional gene information for ZNF253 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZNF253 Gene

Genomics for ZNF253 Gene

GeneHancer (GH) Regulatory Elements for ZNF253 Gene

Promoters and enhancers for ZNF253 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
GH19I019865 Promoter/Enhancer 2.3 EPDnew FANTOM5 Ensembl ENCODE 558.7 +0.9 894 3 PKNOX1 SMAD1 ATF1 ARID4B SIN3A DMAP1 ZNF48 YY1 ETS1 POLR2B ZNF253 ZNF93 ZNF506 ATP13A1 MEF2B NR2C2AP GATAD2A ZNF14 PBX4 VN1R77P
GH19I019374 Enhancer 1.2 Ensembl ENCODE dbSUPER 46.4 -490.7 -490667 0.9 ZNF493 MZF1 ZBTB40 ZNF155 ZNF213 ZNF354C ZNF138 SCRT2 KLF7 ZNF202 NR2C2AP ATP13A1 ENSG00000268030 ENSG00000267481 ZNF90 UPF1 ZNF253 MAU2 SUGP2 ENSG00000268938
GH19I020051 Enhancer 1.4 FANTOM5 Ensembl ENCODE 1.3 +186.5 186507 1.9 ATF1 SIN3A DMAP1 YY1 ETS1 ZNF143 ATF7 SP3 RXRA REST LOC105372309 ZNF682 ZNF253 ZNF506 GC19M022339
GH19I020102 Enhancer 0.4 ENCODE 4.2 +237.3 237331 1.4 USF1 MAX ZNF682 ZNF506 ZNF253 PIR56356 PIR62950 ZNF90
GH19I019860 Enhancer 0.7 Ensembl ENCODE 0.8 -4.6 -4609 1.2 SP1 L3MBTL2 POLR2A SIN3A REST FOS MGA ZNF93 ATP13A1 ZNF101 BNIP3P9 ZNF253
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ZNF253 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZNF253 gene promoter:

Genomic Locations for ZNF253 Gene

Genomic Locations for ZNF253 Gene
28,845 bases
Plus strand

Genomic View for ZNF253 Gene

Genes around ZNF253 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZNF253 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZNF253 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZNF253 Gene

Proteins for ZNF253 Gene

  • Protein details for ZNF253 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein 253
    Protein Accession:
    Secondary Accessions:
    • A4FVA7
    • Q0P6G3
    • Q6P0L2
    • Q8NCA3
    • Q8NCF9

    Protein attributes for ZNF253 Gene

    499 amino acids
    Molecular mass:
    57602 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAH14148.2; Type=Erroneous initiation; Evidence={ECO:0000305}; Sequence=BAC11257.1; Type=Erroneous initiation; Evidence={ECO:0000305};

    Alternative splice isoforms for ZNF253 Gene


neXtProt entry for ZNF253 Gene

Post-translational modifications for ZNF253 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZNF253 Gene

No data available for DME Specific Peptides for ZNF253 Gene

Domains & Families for ZNF253 Gene

Gene Families for ZNF253 Gene

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

Suggested Antigen Peptide Sequences for ZNF253 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the krueppel C2H2-type zinc-finger protein family.
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
genes like me logo Genes that share domains with ZNF253: view

Function for ZNF253 Gene

Molecular function for ZNF253 Gene

UniProtKB/Swiss-Prot Function:
May function as a transcription factor. Seem to have a transcriptional repression activity.

Gene Ontology (GO) - Molecular Function for ZNF253 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0008270 zinc ion binding NAS 10585455
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZNF253: view
genes like me logo Genes that share phenotypes with ZNF253: view

Clone Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes From GWAS Catalog , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZNF253 Gene

Localization for ZNF253 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZNF253 Gene

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 ZNF253 gene
Compartment Confidence
nucleus 3

Gene Ontology (GO) - Cellular Components for ZNF253 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with ZNF253: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for ZNF253 Gene

Pathways & Interactions for ZNF253 Gene

SuperPathways for ZNF253 Gene

SuperPathway Contained pathways
1 Gene Expression
genes like me logo Genes that share pathways with ZNF253: view

Pathways by source for ZNF253 Gene

2 Reactome pathways for ZNF253 Gene

Gene Ontology (GO) - Biological Process for ZNF253 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA,NAS 10585455
GO:0045892 negative regulation of transcription, DNA-templated NAS 10585455
genes like me logo Genes that share ontologies with ZNF253: view

No data available for SIGNOR curated interactions for ZNF253 Gene

Drugs & Compounds for ZNF253 Gene

No Compound Related Data Available

Transcripts for ZNF253 Gene

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZNF253 Gene

No ASD Table

Relevant External Links for ZNF253 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZNF253 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZNF253 Gene

NURSA nuclear receptor signaling pathways regulating expression of ZNF253 Gene:


mRNA Expression by UniProt/SwissProt for ZNF253 Gene:

Tissue specificity: Expressed in bone marrow and in monocytic and immature erythroid cell lines.

Evidence on tissue expression from TISSUES for ZNF253 Gene

  • Bone marrow(4)
  • Eye(4)
genes like me logo Genes that share expression patterns with ZNF253: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , Protein differential expression in normal tissues , Protein expression , Protein tissue co-expression partners and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZNF253 Gene

Orthologs for ZNF253 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ZNF253 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZNF253 33 34
  • 99.1 (n)
(Mus musculus)
Mammalia Zfp65 33 16
  • 67.43 (n)
Zfp386 34
  • 33 (a)
(Bos Taurus)
Mammalia -- 34
  • 49 (a)
(Monodelphis domestica)
Mammalia -- 34
  • 49 (a)
-- 34
  • 34 (a)
(Canis familiaris)
Mammalia -- 34
  • 34 (a)
(Anolis carolinensis)
Reptilia -- 34
  • 48 (a)
-- 34
  • 38 (a)
-- 34
  • 35 (a)
-- 34
  • 31 (a)
-- 34
  • 29 (a)
-- 34
  • 28 (a)
-- 34
  • 28 (a)
-- 34
  • 27 (a)
Species where no ortholog for ZNF253 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)
  • 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)
  • 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 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 ZNF253 Gene

Gene Tree for ZNF253 (if available)
Gene Tree for ZNF253 (if available)

Paralogs for ZNF253 Gene

(541) SIMAP similar genes for ZNF253 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with ZNF253: view

Variants for ZNF253 Gene

Sequence variations from dbSNP and Humsavar for ZNF253 Gene

SNP ID Clin Chr 19 pos Variation AA Info Type
rs1000044464 -- 19,875,702(+) TCTTTCTTTCTTT/TCTTTCTTT intron_variant
rs1000056028 -- 19,874,637(+) C/T intron_variant
rs1000106540 -- 19,874,432(+) A/C intron_variant
rs1000182983 -- 19,892,079(+) C/T coding_sequence_variant, missense_variant
rs1000199579 -- 19,882,797(+) C/T intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ZNF253 Gene

Variant ID Type Subtype PubMed ID
dgv3456n100 CNV gain 25217958
dgv509e201 CNV deletion 23290073
esv2259143 CNV deletion 18987734
esv2718296 CNV deletion 23290073
esv2718298 CNV deletion 23290073
esv2718299 CNV deletion 23290073
esv3643860 CNV loss 21293372
esv3893169 CNV loss 25118596
nsv1061846 CNV loss 25217958
nsv1066792 CNV gain 25217958
nsv138332 CNV deletion 16902084
nsv519535 CNV gain 19592680
nsv961192 CNV duplication 23825009

Variation tolerance for ZNF253 Gene

Residual Variation Intolerance Score: 59.6% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 0.96; 19.85% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZNF253 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZNF253 Gene

Disorders for ZNF253 Gene

Additional Disease Information for ZNF253

No disorders were found for ZNF253 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZNF253 Gene

Publications for ZNF253 Gene

  1. Molecular cloning of six novel Krüppel-like zinc finger genes from hematopoietic cells and identification of a novel transregulatory domain KRNB. (PMID: 10585455) Han ZG … Chen Z (The Journal of biological chemistry 1999) 2 3 4 58
  2. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K … Sugano S (Genome research 2006) 3 58
  3. LDOC1, a novel MZF-1-interacting protein, induces apoptosis. (PMID: 15670815) Inoue M … Ra C (FEBS letters 2005) 3 58
  4. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 4 58
  5. The DNA sequence and biology of human chromosome 19. (PMID: 15057824) Grimwood J … Lucas SM (Nature 2004) 4 58

Products for ZNF253 Gene

Sources for ZNF253 Gene

Loading form....