Aliases for ZNF653 Gene

Aliases for ZNF653 Gene

  • Zinc Finger Protein 653 2 3 4 5
  • 67 KDa Zinc Finger Protein 3 4
  • Zinc Finger Protein Zip67 3 4
  • ZIP67 3 4
  • E430039K05Rik 3
  • ZNF653 5
  • Zip67 2

External Ids for ZNF653 Gene

Previous GeneCards Identifiers for ZNF653 Gene

  • GC19M011457
  • GC19M011594
  • GC19M011168

Summaries for ZNF653 Gene

GeneCards Summary for ZNF653 Gene

ZNF653 (Zinc Finger Protein 653) is a Protein Coding gene. Diseases associated with ZNF653 include Duane-Radial Ray Syndrome. An important paralog of this gene is ENSG00000267477.

UniProtKB/Swiss-Prot Summary for ZNF653 Gene

  • Transcriptional repressor. May repress NR5A1, PPARG, NR1H3, NR4A2, ESR1 and NR3C1 transcriptional activity.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZNF653 Gene

Genomics for ZNF653 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZNF653 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
GH19J011504 Promoter/Enhancer 2.2 EPDnew Ensembl ENCODE CraniofacialAtlas 250.7 +0.1 126 2.6 TBP SP1 MXD4 SIX5 NR2C1 SMAD5 ETS1 MBD2 ZNF217 POLR2A ENSG00000267477 NONHSAG024846.2 ZNF653 lnc-ECSIT-1 CNN1 ILF3 ZNF136 ZNF627 ZNF788P ZNF439
GH19J011496 Promoter/Enhancer 1.3 EPDnew Ensembl ENCODE 250.4 +8.5 8538 2.2 TBP IKZF1 CTCF ZNF513 ARNT ZNF623 REST VEZF1 SMC3 RAD21 MIR7974 ZNF653 ECSIT ENSG00000267477 lnc-ECSIT-1 ELAVL3 HSALNG0124033
GH19J011373 Promoter/Enhancer 2.6 EPDnew FANTOM5 Ensembl ENCODE CraniofacialAtlas dbSUPER 2 +129.5 129519 6.2 TBP SP1 MXD4 FEZF1 CEBPA ZNF217 NR2C1 MNT BRCA1 SMAD5 TMEM205 SWSAP1 ENSG00000267277 HSALNG0124021 piR-38729 ILF3 ZNF136 ZNF627 KRI1 ZNF442
GH19J011478 Promoter/Enhancer 1.6 FANTOM5 Ensembl ENCODE 2.3 +24.6 24638 4 TBP SP1 MXD4 ZBTB10 NR2C1 MNT HES1 MBD2 ZNF217 POLR2A ELAVL3 lnc-ELAVL3-1 ILF3 KRI1 ZNF136 ZNF627 TIMM29 ZNF44 ZNF441 ZNF625
GH19J011530 Enhancer 1.1 FANTOM5 ENCODE 1.8 -24.8 -24772 0.2 MXD4 CEBPA MNT BHLHE40 CTCF HOMEZ THAP11 CEBPB SIN3A ZNF511 ECSIT ZNF439 ODAD3 ELAVL3 ZNF491 ZNF653 ZNF441 lnc-CNN1-1 CNN1
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZNF653 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZNF653

Top Transcription factor binding sites by QIAGEN in the ZNF653 gene promoter:
  • AML1a
  • c-Myc
  • Elk-1
  • FOXO3
  • FOXO3a
  • FOXO3b
  • IRF-1
  • Max
  • MZF-1

Genomic Locations for ZNF653 Gene

Latest Assembly
22,413 bases
Minus strand

Previous Assembly
(GRCh37/hg19 by Entrez Gene)
22,411 bases
Minus strand

(GRCh37/hg19 by Ensembl)
22,497 bases
Minus strand

Genomic View for ZNF653 Gene

Genes around ZNF653 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZNF653 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZNF653 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZNF653 Gene

Proteins for ZNF653 Gene

  • Protein details for ZNF653 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein 653
    Protein Accession:
    Secondary Accessions:
    • Q96AS7

    Protein attributes for ZNF653 Gene

    615 amino acids
    Molecular mass:
    67235 Da
    Quaternary structure:
    • Interacts with NR5A1.

neXtProt entry for ZNF653 Gene

Post-translational modifications for ZNF653 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZNF653 Gene

No data available for DME Specific Peptides for ZNF653 Gene

Domains & Families for ZNF653 Gene

Gene Families for ZNF653 Gene

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

Protein Domains for ZNF653 Gene


Suggested Antigen Peptide Sequences for ZNF653 Gene

GenScript: Design optimal peptide antigens:
  • Zinc finger protein Zip67 (ZN653_HUMAN)

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 ZNF653: view

Function for ZNF653 Gene

Molecular function for ZNF653 Gene

UniProtKB/Swiss-Prot Function:
Transcriptional repressor. May repress NR5A1, PPARG, NR1H3, NR4A2, ESR1 and NR3C1 transcriptional activity.

Phenotypes From GWAS Catalog for ZNF653 Gene

Gene Ontology (GO) - Molecular Function for ZNF653 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003712 transcription coregulator activity IBA 21873635
GO:0003714 transcription corepressor activity IDA 12920234
GO:0005515 protein binding IPI 32296183
GO:0008134 transcription factor binding IPI 12920234
genes like me logo Genes that share ontologies with ZNF653: view
genes like me logo Genes that share phenotypes with ZNF653: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZNF653

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , miRNA , Transcription Factor Targets and HOMER Transcription for ZNF653 Gene

Localization for ZNF653 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZNF653 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 ZNF653 gene
Compartment Confidence
nucleus 4
extracellular 2

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ZNF653 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005576 extracellular region IEA --
GO:0005634 nucleus IBA,IC 12920234
genes like me logo Genes that share ontologies with ZNF653: view

Pathways & Interactions for ZNF653 Gene

PathCards logo

SuperPathways for ZNF653 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZNF653 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006357 regulation of transcription by RNA polymerase II IBA 21873635
GO:0045892 negative regulation of transcription, DNA-templated IEA --
GO:1900116 extracellular negative regulation of signal transduction IDA 12920234
GO:1903507 negative regulation of nucleic acid-templated transcription IDA 12920234
genes like me logo Genes that share ontologies with ZNF653: view

No data available for Pathways by source and SIGNOR curated interactions for ZNF653 Gene

Drugs & Compounds for ZNF653 Gene

No Compound Related Data Available

Transcripts for ZNF653 Gene

mRNA/cDNA for ZNF653 Gene

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

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZNF653

Alternative Splicing Database (ASD) splice patterns (SP) for ZNF653 Gene

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

Relevant External Links for ZNF653 Gene

GeneLoc Exon Structure for

Expression for ZNF653 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZNF653 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

  • Testis (Reproductive System)

Protein differential expression in normal tissues from HIPED for ZNF653 Gene

This gene is overexpressed in Platelet (69.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ZNF653 Gene

Protein tissue co-expression partners for ZNF653 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZNF653

SOURCE GeneReport for Unigene cluster for ZNF653 Gene:


mRNA Expression by UniProt/SwissProt for ZNF653 Gene:

Tissue specificity: Highly expressed in testis, cerebellum, temporal lobe, hippocampus and the adrenal gland. Moderately expressed in spleen, uterus, thymus, pancreas, kidney, stomach and rectum.

Evidence on tissue expression from TISSUES for ZNF653 Gene

  • Nervous system(4.2)
  • Eye(4)
genes like me logo Genes that share expression patterns with ZNF653: view

Primer products for research

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZNF653 Gene

Orthologs for ZNF653 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ZNF653 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZNF653 30 31
  • 97.95 (n)
(Canis familiaris)
Mammalia ZNF653 30 31
  • 91.69 (n)
(Bos Taurus)
Mammalia ZNF653 30 31
  • 90.97 (n)
(Mus musculus)
Mammalia Zfp653 30 17 31
  • 87.73 (n)
(Rattus norvegicus)
Mammalia Zfp653 30
  • 87.08 (n)
(Monodelphis domestica)
Mammalia -- 31
  • 78 (a)
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 70 (a)
(Anolis carolinensis)
Reptilia -- 31
  • 74 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC100486237 30
  • 58.65 (n)
African clawed frog
(Xenopus laevis)
Amphibia Xl.15416 30
(Danio rerio)
Actinopterygii znf653 31
  • 52 (a)
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 17 (a)
Species where no ortholog for ZNF653 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • Rainbow Trout (Oncorhynchus mykiss)
  • 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)
  • Worm (Caenorhabditis elegans)

Evolution for ZNF653 Gene

Gene Tree for ZNF653 (if available)
Gene Tree for ZNF653 (if available)
Evolutionary constrained regions (ECRs) for ZNF653: view image

Paralogs for ZNF653 Gene

(27) SIMAP similar genes for ZNF653 Gene using alignment to 5 proteins:

  • ZN653_HUMAN
  • K7EL79_HUMAN
genes like me logo Genes that share paralogs with ZNF653: view

Variants for ZNF653 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZNF653 Gene

SNP ID Clinical significance and condition Chr 19 pos Variation AA Info Type
rs17851437 - p.Lys54Arg
rs35556595 - p.Ala329Thr

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for ZNF653 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for ZNF653 Gene

Variant ID Type Subtype PubMed ID
nsv519802 CNV loss 19592680

Variation tolerance for ZNF653 Gene

Residual Variation Intolerance Score: 24.7% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.31; 53.29% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZNF653 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZNF653 Gene

Disorders for ZNF653 Gene

MalaCards: The human disease database

(1) MalaCards diseases for ZNF653 Gene - From: COP

Disorder Aliases PubMed IDs
duane-radial ray syndrome
  • drrs
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ZNF653

genes like me logo Genes that share disorders with ZNF653: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZNF653 Gene

Publications for ZNF653 Gene

  1. Cloning and characterization of a novel zinc finger protein that modulates the transcriptional activity of nuclear receptors. (PMID: 12920234) Borud B … Bakke M (Molecular endocrinology (Baltimore, Md.) 2003) 3 4 23
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard DS … MGC Project Team (Genome research 2004) 3 4
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. (PMID: 12477932) Strausberg RL … Mammalian Gene Collection Program Team (Proceedings of the National Academy of Sciences of the United States of America 2002) 2 3
  4. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  5. DCAF8, a novel MuRF1 interaction partner, promotes muscle atrophy. (PMID: 31391242) Nowak M … Sommer T (Journal of cell science 2019) 3

Products for ZNF653 Gene

Sources for ZNF653 Gene