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Aliases for ZFX Gene

Aliases for ZFX Gene

  • Zinc Finger Protein X-Linked 2 3
  • Zinc Finger X-Chromosomal Protein 3
  • Zinc Finger Protein, X-Linked 5
  • X-Linked Zinc Finger Protein 3
  • ZNF926 3

External Ids for ZFX Gene

Previous GeneCards Identifiers for ZFX Gene

  • GC0XP022985
  • GC0XP022816
  • GC0XP023369
  • GC0XP023531
  • GC0XP023529
  • GC0XP023927
  • GC0XP024077
  • GC0XP021912

Summaries for ZFX Gene

Entrez Gene Summary for ZFX Gene

  • This gene on the X chromosome is structurally similar to a related gene on the Y chromosome. It encodes a member of the krueppel C2H2-type zinc-finger protein family. The full-length protein contains an acidic transcriptional activation domain (AD), a nuclear localization sequence (NLS) and a DNA binding domain (DBD) consisting of 13 C2H2-type zinc fingers. Studies in mouse embryonic and adult hematopoietic stem cells showed that this gene was required as a transcriptional regulator for self-renewal of both stem cell types, but it was dispensable for growth and differentiation of their progeny. Multiple alternatively spliced transcript variants encoding different isoforms have been identified, but the full-length nature of some variants has not been determined. [provided by RefSeq, May 2010]

GeneCards Summary for ZFX Gene

ZFX (Zinc Finger Protein X-Linked) is a Protein Coding gene. Among its related pathways are Hematopoietic Stem Cell Gene Regulation by GABP alpha/beta Complex. Gene Ontology (GO) annotations related to this gene include transcription coactivator activity. An important paralog of this gene is ZFY.

UniProtKB/Swiss-Prot for ZFX Gene

  • Probable transcriptional activator.

Gene Wiki entry for ZFX Gene

Additional gene information for ZFX Gene

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

Genomics for ZFX Gene

GeneHancer (GH) Regulatory Elements for ZFX Gene

Promoters and enhancers for ZFX 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
GH0XJ024144 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE 688.4 +0.2 212 9.7 PKNOX1 FOXA2 ARNT ZFP64 ARID4B SIN3A FEZF1 ZNF2 YY1 ZNF213 ZFX ZFX-AS1 RPL9P7 POLA1
GH0XJ024133 Promoter 0.9 EPDnew 650.4 -15.3 -15327 0.1 MXI1 SMARCC1 CEBPB RAD21 RFX5 ZNF366 POLR2A SMC3 ZNF600 CHD2 ENSG00000201407 GC0XP024133 ZFX
GH0XJ024053 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 21.5 -93.8 -93751 3.6 HDGF SMAD1 ARNT ARID4B SIN3A FEZF1 DMAP1 ZNF2 IRF4 YY1 EIF2S3 KLHL15 ZFX GC0XP024078
GH0XJ025011 Enhancer 1.2 FANTOM5 ENCODE dbSUPER 25.9 +863.7 863680 2.7 SIN3A GLI4 ZNF2 ZNF335 GLIS2 ZNF366 ZNF263 ZNF202 ZNF680 ELF1 POLA1 ZFX EIF2S3 LOC389842 ARX PCYT1B GC0XP024999
GH0XJ023905 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 10.5 -241.4 -241387 3.3 ARID4B SIN3A ZNF2 YY1 E2F8 ZNF207 ZNF143 SP3 REST ZNF592 APOO CXorf58 KLHL15 ZFX EIF2S3 RPL9P7
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ZFX on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZFX gene promoter:
  • YY1
  • AhR
  • Arnt
  • Spz1
  • POU3F1
  • Pax-4a
  • Gfi-1
  • FOXD3

Genomic Locations for ZFX Gene

Genomic Locations for ZFX Gene
67,322 bases
Plus strand
67,083 bases
Plus strand

Genomic View for ZFX Gene

Genes around ZFX on UCSC Golden Path with GeneCards custom track

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

RefSeq DNA sequence for ZFX Gene

Proteins for ZFX Gene

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

    Protein Symbol:
    Recommended name:
    Zinc finger X-chromosomal protein
    Protein Accession:
    Secondary Accessions:
    • B9EG97
    • O43668
    • Q8WYJ8

    Protein attributes for ZFX Gene

    805 amino acids
    Molecular mass:
    90522 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for ZFX Gene


neXtProt entry for ZFX Gene

Post-translational modifications for ZFX Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZFX Gene

Domains & Families for ZFX Gene

Gene Families for ZFX Gene

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

Graphical View of Domain Structure for InterPro Entry



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

Function for ZFX Gene

Molecular function for ZFX Gene

UniProtKB/Swiss-Prot Function:
Probable transcriptional activator.
GENATLAS Biochemistry:
zinc finger protein,X-linked,putative transcription activator with alternative isoforms,575 and 804 AA,escaping inactivation

Phenotypes From GWAS Catalog for ZFX Gene

Gene Ontology (GO) - Molecular Function for ZFX Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding NAS 19274049
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding TAS,IEA --
GO:0003713 transcription coactivator activity TAS 2105457
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZFX: view
genes like me logo Genes that share phenotypes with ZFX: view

Animal Models for ZFX Gene

MGI Knock Outs for ZFX:
  • Zfx Zfx<tm1Dcp>
  • Zfx Zfx<tm1.2Reiz>

Animal Model Products

CRISPR Products

miRNA for ZFX Gene

miRTarBase miRNAs that target ZFX
Targeted motifs for ZFX Gene
HOMER Transcription Factor Regulatory Elements motif ZFX
  • Consensus sequence: AGGCCTGG Submotif: canonical Cell Type: mES GEO ID: GSE11431

Inhibitory RNA Products

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

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology and Transcription Factor Targets for ZFX Gene

Localization for ZFX Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZFX 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 ZFX gene
Compartment Confidence
nucleus 5
mitochondrion 1

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for ZFX Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA --
GO:0005730 nucleolus IDA --
genes like me logo Genes that share ontologies with ZFX: view

Pathways & Interactions for ZFX Gene

genes like me logo Genes that share pathways with ZFX: view

Pathways by source for ZFX Gene

Gene Ontology (GO) - Biological Process for ZFX 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 by RNA polymerase II IEA --
GO:0007275 multicellular organism development IBA --
genes like me logo Genes that share ontologies with ZFX: view

No data available for SIGNOR curated interactions for ZFX Gene

Drugs & Compounds for ZFX Gene

(2) Drugs for ZFX Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with ZFX: view

Transcripts for ZFX Gene

Unigene Clusters for ZFX Gene

Zinc finger protein, X-linked:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

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

Clone Products

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

ExUns: 1a · 1b ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c · 5d ^ 6 ^ 7 ^ 8a · 8b · 8c · 8d · 8e ^ 9
SP1: - - - -
SP2: - - - - -
SP3: - - - - - -
SP4: - - -
SP5: -
SP6: -
SP7: - - - - - -

Relevant External Links for ZFX Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZFX Gene

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

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZFX Gene

This gene is overexpressed in Peripheral blood mononuclear cells (34.8), Rectum (16.7), and Ovary (8.5).

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

Protein tissue co-expression partners for ZFX Gene

NURSA nuclear receptor signaling pathways regulating expression of ZFX Gene:


SOURCE GeneReport for Unigene cluster for ZFX Gene:


Evidence on tissue expression from TISSUES for ZFX Gene

  • Kidney(2.2)
  • Nervous system(2.1)
genes like me logo Genes that share expression patterns with ZFX: view

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

Orthologs for ZFX Gene

This gene was present in the common ancestor of chordates.

Orthologs for ZFX Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZFX 34 33
  • 99.58 (n)
(Monodelphis domestica)
Mammalia -- 34
  • 96 (a)
(Canis familiaris)
Mammalia ZFX 34 33
  • 95.41 (n)
(Bos Taurus)
Mammalia ZFX 34 33
  • 94.12 (n)
(Mus musculus)
Mammalia Zfx 16 34 33
  • 91.81 (n)
(Rattus norvegicus)
Mammalia Zfx 33
  • 90.59 (n)
(Ornithorhynchus anatinus)
Mammalia -- 34
  • 87 (a)
(Gallus gallus)
Aves -- 34
  • 91 (a)
ZFX 33
  • 84.39 (n)
(Anolis carolinensis)
Reptilia -- 34
  • 82 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia zfx 33
  • 73.52 (n)
Str.4675 33
African clawed frog
(Xenopus laevis)
Amphibia XZFY-1 33
(Danio rerio)
Actinopterygii zfx 34 33
  • 64.03 (n)
CABZ01079241.1 34
  • 64 (a)
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.1741 33
Species where no ortholog for ZFX was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya 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)
  • 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)
  • 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)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for ZFX Gene

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

Paralogs for ZFX Gene

Paralogs for ZFX Gene

(237) SIMAP similar genes for ZFX Gene using alignment to 17 proteins:

  • B9EG97_HUMAN
  • C9J682_HUMAN
  • L8E7U7_HUMAN
genes like me logo Genes that share paralogs with ZFX: view

Variants for ZFX Gene

Sequence variations from dbSNP and Humsavar for ZFX Gene

SNP ID Clin Chr 0X pos Variation AA Info Type
rs1000000450 -- 24,192,935(+) G/T intron_variant
rs1000117552 -- 24,195,005(+) C/G intron_variant
rs1000124900 -- 24,185,047(+) G/A genic_upstream_transcript_variant, intron_variant
rs1000154106 -- 24,201,371(+) A/G intron_variant
rs1000294109 -- 24,185,015(+) C/T genic_upstream_transcript_variant, intron_variant

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

Variant ID Type Subtype PubMed ID
nsv818019 CNV gain 17921354
nsv524256 CNV gain 19592680
nsv515192 CNV gain 21397061
nsv515191 CNV gain 21397061
nsv1145288 CNV deletion 24896259
nsv1122261 CNV deletion 24896259
nsv1076250 CNV deletion 25765185
esv2674864 CNV deletion 23128226
dgv504n21 CNV gain 19592680

Variation tolerance for ZFX Gene

Residual Variation Intolerance Score: 24.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.22; 24.40% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZFX Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assay Products

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

Disorders for ZFX Gene

No disorders were found for ZFX Gene.

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

Publications for ZFX Gene

  1. Comparison of ZFY and ZFX gene structure and analysis of alternative 3' untranslated regions of ZFY. (PMID: 2041734) North M … Ferguson-Smith MA (Nucleic acids research 1991) 3 4 22 58
  2. Cloning and comparative analysis of the bovine, porcine, and equine sex chromosome genes ZFX and ZFY. (PMID: 15060604) Poloumienko A (Genome 2004) 3 22 58
  3. Paternal transcripts for glucose-6-phosphate dehydrogenase and adenosine deaminase are first detectable in the human preimplantation embryo at the three- to four-cell stage. (PMID: 9364438) Taylor DM … Handyside AH (Molecular reproduction and development 1997) 3 22 58
  4. Comparison of human ZFY and ZFX transcripts. (PMID: 2308929) Palmer MS … Goodfellow PN (Proceedings of the National Academy of Sciences of the United States of America 1990) 3 4 58
  5. Putative transcription activator with alternative isoforms encoded by human ZFX gene. (PMID: 2512506) Schneider-Gädicke A … Page DC (Nature 1989) 3 4 58

Products for ZFX Gene

Sources for ZFX Gene

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