Aliases for ZFP42 Gene

Aliases for ZFP42 Gene

  • ZFP42 Zinc Finger Protein 2 3 5
  • ZNF754 2 3 4
  • REX1 2 3 4
  • Zinc Finger Protein 42 Homolog 3 4
  • Reduced Expression Protein 1 3 4
  • Zinc Finger Protein 754 3 4
  • Zfp-42 3 4
  • REX-1 3 4
  • Zinc Finger Protein 42 Homolog (Mouse) 2
  • REX1 Transcription Factor 3
  • Zinc Finger Protein 42 2
  • HREX-1 4
  • ZFP42 5

External Ids for ZFP42 Gene

Previous GeneCards Identifiers for ZFP42 Gene

  • GC04P189596
  • GC04P189612
  • GC04P189292
  • GC04P189153
  • GC04P188916
  • GC04P184653

Summaries for ZFP42 Gene

GeneCards Summary for ZFP42 Gene

ZFP42 (ZFP42 Zinc Finger Protein) is a Protein Coding gene. Diseases associated with ZFP42 include Spermatocytoma and Germ Cell And Embryonal Cancer. Among its related pathways are Preimplantation Embryo and Embryonic and Induced Pluripotent Stem Cells and Lineage-specific Markers. Gene Ontology (GO) annotations related to this gene include DNA-binding transcription factor activity and sequence-specific DNA binding. An important paralog of this gene is YY1.

UniProtKB/Swiss-Prot Summary for ZFP42 Gene

  • Involved in the reprogramming of X-chromosome inactivation during the acquisition of pluripotency. Required for efficient elongation of TSIX, a non-coding RNA antisense to XIST. Binds DXPas34 enhancer within the TSIX promoter. Involved in ES cell self-renewal (By similarity).

Gene Wiki entry for ZFP42 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZFP42 Gene

Genomics for ZFP42 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZFP42 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
GH04J187995 Promoter/Enhancer 1.2 EPDnew Ensembl ENCODE 600.7 +2.7 2657 3.4 KDM1A POLR2A USF1 YY1 MYC SIN3A CHD1 TAF1 GTF2F1 TBP ZFP42 HSALNG0039261 TRIML2
GH04J187992 Enhancer 0.6 Ensembl ENCODE 600.7 -0.6 -631 1.4 CTCF TEAD4 RAD21 SMC3 ZNF143 ENSG00000286641 ZFP42 lnc-TRIML2-2
GH04J188106 Promoter/Enhancer 1.5 FANTOM5 Ensembl ENCODE dbSUPER 15 +115.4 115411 6.3 TEAD4 SP1 ATF3 CEBPB JUN FOS YY1 JUND POLR2A MAX TRIML2 lnc-TRIML2-6 ZFP42 LINC02434 FAUP3 lnc-TRIML1-7
GH04J188014 Enhancer 0.8 Ensembl ENCODE 8.2 +21.4 21385 1.7 ATF7 TEAD4 POLR2A CEBPB JUN CREB1 EP300 POLR3A GTF3C2 MAFK ZFP42 HSALNG0039261 TRIML2
GH04J188016 Enhancer 0.4 Ensembl ENCODE 7.3 +23.1 23057 1 POLR2A ZFP42 HSALNG0039261 TRIML2
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZFP42 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZFP42

Top Transcription factor binding sites by QIAGEN in the ZFP42 gene promoter:
  • aMEF-2
  • c-Myc
  • Gfi-1
  • Ik-1
  • Max
  • MEF-2A
  • Nkx6-1
  • POU2F1
  • POU2F1a
  • SRF

Genomic Locations for ZFP42 Gene

Genomic Locations for ZFP42 Gene
chr4:187,994,044-188,005,046
(GRCh38/hg38)
Size:
11,003 bases
Orientation:
Plus strand
chr4:188,916,925-188,926,204
(GRCh37/hg19)
Size:
9,280 bases
Orientation:
Plus strand

Genomic View for ZFP42 Gene

Genes around ZFP42 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZFP42 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZFP42 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZFP42 Gene

Proteins for ZFP42 Gene

  • Protein details for ZFP42 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q96MM3-ZFP42_HUMAN
    Recommended name:
    Zinc finger protein 42 homolog
    Protein Accession:
    Q96MM3
    Secondary Accessions:
    • D3DP65
    • Q8WXE2

    Protein attributes for ZFP42 Gene

    Size:
    310 amino acids
    Molecular mass:
    34802 Da
    Quaternary structure:
    No Data Available

neXtProt entry for ZFP42 Gene

Post-translational modifications for ZFP42 Gene

  • Polyubiquitinated by RNF12, leading to proteasomal degradation.
  • Ubiquitination at Lys231 and Lys233
  • Modification sites at PhosphoSitePlus

Other Protein References for ZFP42 Gene

No data available for DME Specific Peptides for ZFP42 Gene

Domains & Families for ZFP42 Gene

Gene Families for ZFP42 Gene

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

Protein Domains for ZFP42 Gene

Suggested Antigen Peptide Sequences for ZFP42 Gene

GenScript: Design optimal peptide antigens:
  • Zinc finger protein 754 (ZFP42_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q96MM3

UniProtKB/Swiss-Prot:

ZFP42_HUMAN :
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
Family:
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
genes like me logo Genes that share domains with ZFP42: view

Function for ZFP42 Gene

Molecular function for ZFP42 Gene

UniProtKB/Swiss-Prot Function:
Involved in the reprogramming of X-chromosome inactivation during the acquisition of pluripotency. Required for efficient elongation of TSIX, a non-coding RNA antisense to XIST. Binds DXPas34 enhancer within the TSIX promoter. Involved in ES cell self-renewal (By similarity).
UniProtKB/Swiss-Prot Induction:
Down-regulated upon retinoic acid addition to F9 stem cells.

Phenotypes From GWAS Catalog for ZFP42 Gene

Gene Ontology (GO) - Molecular Function for ZFP42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IBA 21873635
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IBA 21873635
GO:0003700 DNA-binding transcription factor activity NAS 14688391
GO:0043565 sequence-specific DNA binding IBA 21873635
genes like me logo Genes that share ontologies with ZFP42: view
genes like me logo Genes that share phenotypes with ZFP42: view

Animal Models for ZFP42 Gene

MGI Knock Outs for ZFP42:

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZFP42

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ZFP42 Gene

Localization for ZFP42 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZFP42 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 ZFP42 gene
Compartment Confidence
nucleus 4
extracellular 2
cytoskeleton 2
cytosol 2
plasma membrane 1
mitochondrion 1
endosome 1

Gene Ontology (GO) - Cellular Components for ZFP42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000790 nuclear chromatin IBA 21873635
GO:0005634 nucleus IBA 21873635
GO:0005667 transcription factor complex IBA 21873635
GO:0005737 cytoplasm IDA 16344273
GO:0031519 PcG protein complex IBA 21873635
genes like me logo Genes that share ontologies with ZFP42: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for ZFP42 Gene

Pathways & Interactions for ZFP42 Gene

genes like me logo Genes that share pathways with ZFP42: view

Pathways by source for ZFP42 Gene

SIGNOR curated interactions for ZFP42 Gene

Is activated by:

Gene Ontology (GO) - Biological Process for ZFP42 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0008584 male gonad development IEP 18281244
GO:0008585 female gonad development IEP 18281244
GO:0051321 meiotic cell cycle NAS 18281244
genes like me logo Genes that share ontologies with ZFP42: view

Drugs & Compounds for ZFP42 Gene

(1) Drugs for ZFP42 Gene - From: Novoseek

Name Status Disease Links Group Role Mechanism of Action Clinical Trials
genes like me logo Genes that share compounds with ZFP42: view

Transcripts for ZFP42 Gene

mRNA/cDNA for ZFP42 Gene

2 REFSEQ mRNAs :
6 NCBI additional mRNA sequence :
3 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 ZFP42

Alternative Splicing Database (ASD) splice patterns (SP) for ZFP42 Gene

ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4a · 4b · 4c
SP1:
SP2: -
SP3: -

Relevant External Links for ZFP42 Gene

GeneLoc Exon Structure for
ZFP42

Expression for ZFP42 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZFP42 Gene

mRNA differential expression in normal tissues according to GTEx for ZFP42 Gene

This gene is overexpressed in Testis (x44.6).

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZFP42

SOURCE GeneReport for Unigene cluster for ZFP42 Gene:

Hs.335787

mRNA Expression by UniProt/SwissProt for ZFP42 Gene:

Q96MM3-ZFP42_HUMAN
Tissue specificity: Expressed in kidney, epidermal keratinocytes, prostate epithelial cells, bronchial and small airway lung epithelial cells (at protein level). Expressed in malignant kidney and several carcinoma cell lines (at protein level). Expressed in embryonic stem cells, kidney, epidermal keratinocytes, prostate epithelial cells, bronchial and small airway lung epithelial cells. Expressed in embryonal carcinomas, seminomas, malignant kidney and several carcinoma cell lines.

Evidence on tissue expression from TISSUES for ZFP42 Gene

  • Skin(2.2)
  • Muscle(2)
genes like me logo Genes that share expression patterns with ZFP42: view

No data available for 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 ZFP42 Gene

Orthologs for ZFP42 Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for ZFP42 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia ZFP42 30 31
  • 98.92 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia ZFP42 30 31
  • 78.48 (n)
OneToOne
Platypus
(Ornithorhynchus anatinus)
Mammalia -- 31
  • 76 (a)
OneToMany
Cow
(Bos Taurus)
Mammalia ZFP42 30 31
  • 75.51 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Zfp42 30
  • 67.91 (n)
Mouse
(Mus musculus)
Mammalia Zfp42 30 17 31
  • 66.31 (n)
OneToOne
Oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 36 (a)
OneToMany
Chicken
(Gallus gallus)
Aves YY1 31
  • 69 (a)
OneToMany
Lizard
(Anolis carolinensis)
Reptilia -- 31
  • 69 (a)
OneToMany
Zebrafish
(Danio rerio)
Actinopterygii yy1a 31
  • 41 (a)
ManyToMany
yy1b 31
  • 39 (a)
ManyToMany
Fruit Fly
(Drosophila melanogaster)
Insecta pho 31
  • 20 (a)
ManyToMany
phol 31
  • 16 (a)
ManyToMany
Baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes CMR3 33
Sea Squirt
(Ciona savignyi)
Ascidiacea -- 31
  • 34 (a)
OneToMany
Species where no ortholog for ZFP42 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Eremothecium 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)
  • 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)
  • 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)
  • Tropical Clawed Frog (Silurana tropicalis)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for ZFP42 Gene

ENSEMBL:
Gene Tree for ZFP42 (if available)
TreeFam:
Gene Tree for ZFP42 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZFP42: view image

Paralogs for ZFP42 Gene

Paralogs for ZFP42 Gene

(2) SIMAP similar genes for ZFP42 Gene using alignment to 1 proteins:

  • ZFP42_HUMAN
genes like me logo Genes that share paralogs with ZFP42: view

Variants for ZFP42 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZFP42 Gene

SNP ID Clinical significance and condition Chr 04 pos Variation AA Info Type
787281 Likely Benign: not provided 188,003,544(+) G/T MISSENSE_VARIANT
789732 Benign: not provided 188,003,581(+) G/A SYNONYMOUS_VARIANT

Additional dbSNP identifiers (rs#s) for ZFP42 Gene

Structural Variations from Database of Genomic Variants (DGV) for ZFP42 Gene

Variant ID Type Subtype PubMed ID
dgv332n21 CNV loss 19592680
dgv5496n100 CNV gain 25217958
dgv5499n100 CNV gain 25217958
dgv9439n54 CNV gain 21841781
dgv9440n54 CNV gain 21841781
dgv9441n54 CNV loss 21841781
dgv9442n54 CNV gain 21841781
esv2752041 CNV gain 17911159
esv2763831 CNV gain+loss 21179565
esv32613 CNV gain 17666407
esv3569877 CNV loss 25503493
esv3569882 CNV loss 25503493
nsv1017684 CNV loss 25217958
nsv1022128 CNV loss 25217958
nsv1022361 CNV gain 25217958
nsv1027385 CNV loss 25217958
nsv1030775 CNV loss 25217958
nsv1031097 CNV loss 25217958
nsv1031236 CNV gain 25217958
nsv1031595 CNV gain 25217958
nsv10629 CNV loss 18304495
nsv1067931 OTHER inversion 25765185
nsv461870 CNV gain 19166990
nsv461871 CNV gain 19166990
nsv470098 CNV gain 18288195
nsv519300 CNV gain+loss 19592680
nsv523635 CNV gain 19592680
nsv596456 CNV gain 21841781
nsv7367 OTHER inversion 18451855
nsv830173 CNV gain 17160897

Variation tolerance for ZFP42 Gene

Residual Variation Intolerance Score: 42.2% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 1.07; 21.81% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZFP42 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZFP42

SNP Genotyping and Copy Number Assay Products

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZFP42 Gene

Disorders for ZFP42 Gene

MalaCards: The human disease database

(2) MalaCards diseases for ZFP42 Gene - From: DISEASES

Disorder Aliases PubMed IDs
spermatocytoma
  • spermatocytic seminoma
germ cell and embryonal cancer
  • germ cell and embryonal neoplasm
- elite association - COSMIC cancer census association via MalaCards
Search ZFP42 in MalaCards View complete list of genes associated with diseases

Additional Disease Information for ZFP42

genes like me logo Genes that share disorders with ZFP42: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZFP42 Gene

Publications for ZFP42 Gene

  1. Decreased expression of the human stem cell marker, Rex-1 (zfp-42), in renal cell carcinoma. (PMID: 16344273) Raman JD … Gudas LJ (Carcinogenesis 2006) 3 4 23
  2. The putative human stem cell marker, Rex-1 (Zfp42): structural classification and expression in normal human epithelial and carcinoma cell cultures. (PMID: 16865673) Mongan NP … Gudas LJ (Molecular carcinogenesis 2006) 3 4 23
  3. Preimplantation human embryos and embryonic stem cells show comparable expression of stage-specific embryonic antigens. (PMID: 12110702) Henderson JK … Andrews PW (Stem cells (Dayton, Ohio) 2002) 2 3 4
  4. Transcriptional regulation of Rex1 (zfp42) in normal prostate epithelial cells and prostate cancer cells. (PMID: 20232320) Lee MY … Gudas LJ (Journal of cellular physiology 2010) 3 23
  5. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4

Products for ZFP42 Gene

Sources for ZFP42 Gene