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Aliases for ZC3H13 Gene

Aliases for ZC3H13 Gene

  • Zinc Finger CCCH-Type Containing 13 2 3 5
  • KIAA0853 2 3 4
  • Zinc Finger CCCH Domain-Containing Protein 13 3
  • Xio 3

External Ids for ZC3H13 Gene

Previous HGNC Symbols for ZC3H13 Gene

  • KIAA0853

Previous GeneCards Identifiers for ZC3H13 Gene

  • GC13M045426
  • GC13M046528
  • GC13M027333

Summaries for ZC3H13 Gene

GeneCards Summary for ZC3H13 Gene

ZC3H13 (Zinc Finger CCCH-Type Containing 13) is a Protein Coding gene. Diseases associated with ZC3H13 include Wilms Tumor 1.

UniProtKB/Swiss-Prot for ZC3H13 Gene

  • Acts as component of the WTAP complex that is involved in RNA processing and cell cycle (PubMed:24100041).

Gene Wiki entry for ZC3H13 Gene

Additional gene information for ZC3H13 Gene

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZC3H13 Gene

Genomics for ZC3H13 Gene

GeneHancer (GH) Regulatory Elements for ZC3H13 Gene

Promoters and enhancers for ZC3H13 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
GH13J046051 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 650.7 +0.2 231 2.7 PKNOX1 SMAD1 ARID4B SIN3A ZNF2 YY1 SLC30A9 POLR2B E2F8 ZNF207 CPB2-AS1 ZC3H13 CPB2 LOC105370191
GH13J046123 Enhancer 1.3 Ensembl ENCODE dbSUPER 13 -72.9 -72903 3.7 PKNOX1 ARID4B KLF5 RAD21 TCF12 ARID2 ZNF143 ETV6 BCLAF1 RUNX3 ZC3H13 ENSG00000278937 RN7SL288P LCP1
GH13J046109 Enhancer 0.9 ENCODE 11.3 -57.1 -57123 0.8 ELF3 FOXA2 MLX ARID4B DMAP1 RAD21 THRB ZNF48 RARA SLC30A9 CPB2-AS1 ZC3H13 CPB2 ENSG00000278937
GH13J046113 Enhancer 0.8 ENCODE dbSUPER 11 -61.0 -61019 0.6 MEIS2 PKNOX1 ATF1 BHLHE40 JUN MAX ZIC2 E4F1 ZNF395 MITF ZC3H13 ENSG00000278937 CPB2
GH13J046119 Enhancer 0.8 ENCODE 10.9 -67.6 -67556 0.7 HDAC1 SMAD1 NFIB ZNF195 TCF12 FOS ATF7 PHF21A GATAD2B ZNF592 ZC3H13 ENSG00000278937 RN7SL288P
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZC3H13 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZC3H13 gene promoter:
  • PPAR-alpha
  • c-Ets-1
  • Hlf
  • FOXO3
  • FOXO3a
  • FOXO3b
  • Cdc5
  • HNF-4alpha2
  • HNF-4alpha1
  • AML1a

Genomic Locations for ZC3H13 Gene

Genomic Locations for ZC3H13 Gene
98,297 bases
Minus strand
98,295 bases
Minus strand

Genomic View for ZC3H13 Gene

Genes around ZC3H13 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZC3H13 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZC3H13 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZC3H13 Gene

Proteins for ZC3H13 Gene

  • Protein details for ZC3H13 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger CCCH domain-containing protein 13
    Protein Accession:
    Secondary Accessions:
    • A2A323
    • O94936
    • Q5T1Z9
    • Q7Z7J3
    • Q8NDT6
    • Q9H0L6

    Protein attributes for ZC3H13 Gene

    1668 amino acids
    Molecular mass:
    196635 Da
    Quaternary structure:
    • Component of the WTAP complex composed of WTAP, ZC3H13, CBLL1, VIRMA, RBM15, BCLAF1 and THRAP3 (PubMed:24100041).

    Alternative splice isoforms for ZC3H13 Gene


neXtProt entry for ZC3H13 Gene

Post-translational modifications for ZC3H13 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZC3H13 Gene

Domains & Families for ZC3H13 Gene

Gene Families for ZC3H13 Gene

Protein Domains for ZC3H13 Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZC3H13: view

No data available for UniProtKB/Swiss-Prot for ZC3H13 Gene

Function for ZC3H13 Gene

Molecular function for ZC3H13 Gene

UniProtKB/Swiss-Prot Function:
Acts as component of the WTAP complex that is involved in RNA processing and cell cycle (PubMed:24100041).

Phenotypes From GWAS Catalog for ZC3H13 Gene

Gene Ontology (GO) - Molecular Function for ZC3H13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA 22681889
GO:0005515 protein binding IPI 20195357
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZC3H13: view
genes like me logo Genes that share phenotypes with ZC3H13: view

Animal Model Products

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZC3H13 Gene

Localization for ZC3H13 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZC3H13 Gene

Nucleus speckle. Nucleus, nucleoplasm.

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 ZC3H13 gene
Compartment Confidence
nucleus 5
cytosol 2

Subcellular locations from the

Human Protein Atlas (HPA)
  • Actin filaments (2)
  • Nuclear membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZC3H13 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005654 nucleoplasm IDA,IEA 24100041
GO:0016607 nuclear speck IDA,IEA 24100041
genes like me logo Genes that share ontologies with ZC3H13: view

Pathways & Interactions for ZC3H13 Gene

SuperPathways for ZC3H13 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZC3H13 Gene


No data available for Pathways by source and SIGNOR curated interactions for ZC3H13 Gene

Drugs & Compounds for ZC3H13 Gene

No Compound Related Data Available

Transcripts for ZC3H13 Gene

Unigene Clusters for ZC3H13 Gene

Zinc finger CCCH-type containing 13:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZC3H13 Gene

ExUns: 1a · 1b · 1c · 1d ^ 2 ^ 3 ^ 4 ^ 5a · 5b · 5c ^ 6 ^ 7 ^ 8 ^ 9 ^ 10 ^ 11 ^ 12 ^ 13 ^ 14 ^ 15 ^ 16 ^ 17 ^ 18 ^ 19 ^ 20a · 20b ^
SP1: -
SP6: -

ExUns: 21a · 21b ^ 22 ^ 23 ^ 24

Relevant External Links for ZC3H13 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZC3H13 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZC3H13 Gene

Protein differential expression in normal tissues from HIPED for ZC3H13 Gene

This gene is overexpressed in Liver (20.8) and Brain (16.2).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ZC3H13 Gene

Protein tissue co-expression partners for ZC3H13 Gene

NURSA nuclear receptor signaling pathways regulating expression of ZC3H13 Gene:


SOURCE GeneReport for Unigene cluster for ZC3H13 Gene:


Evidence on tissue expression from TISSUES for ZC3H13 Gene

  • Nervous system(4.7)
  • Liver(4.5)
  • Skin(2.4)
  • Spleen(2.3)
  • Heart(2.1)
  • Muscle(2.1)
  • Kidney(2)
  • Lung(2)
genes like me logo Genes that share expression patterns with ZC3H13: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZC3H13 Gene

Orthologs for ZC3H13 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for ZC3H13 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZC3H13 34
  • 100 (a)
(Canis familiaris)
Mammalia ZC3H13 34
  • 88 (a)
(Bos Taurus)
Mammalia ZC3H13 34
  • 85 (a)
(Mus musculus)
Mammalia Zc3h13 34
  • 77 (a)
(Ornithorhynchus anatinus)
Mammalia ZC3H13 34
  • 77 (a)
(Monodelphis domestica)
Mammalia ZC3H13 34
  • 75 (a)
(Gallus gallus)
Aves ZC3H13 34
  • 73 (a)
(Anolis carolinensis)
Reptilia ZC3H13 34
  • 68 (a)
African clawed frog
(Xenopus laevis)
Amphibia Xl.4590 33
tropical clawed frog
(Silurana tropicalis)
Amphibia Str.6022 33
(Danio rerio)
Actinopterygii zc3h13 34
  • 44 (a)
zgc66359 33
(Oryza sativa)
Liliopsida Os.5417 33
Species where no ortholog for ZC3H13 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)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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 ZC3H13 Gene

Gene Tree for ZC3H13 (if available)
Gene Tree for ZC3H13 (if available)
Evolutionary constrained regions (ECRs) for ZC3H13: view image

Paralogs for ZC3H13 Gene

No data available for Paralogs for ZC3H13 Gene

Variants for ZC3H13 Gene

Sequence variations from dbSNP and Humsavar for ZC3H13 Gene

SNP ID Clin Chr 13 pos Variation AA Info Type
rs1000000690 -- 45,961,197(-) AT/ genic_downstream_transcript_variant, intron_variant
rs1000019695 -- 46,007,735(-) T/C intron_variant
rs1000031261 -- 45,957,385(-) A/G genic_downstream_transcript_variant, intron_variant
rs1000046731 -- 46,054,357(-) T/C upstream_transcript_variant
rs1000071825 -- 45,991,660(-) T/C intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ZC3H13 Gene

Variant ID Type Subtype PubMed ID
dgv223e201 CNV deletion 23290073
esv2507198 CNV deletion 19546169
esv2666736 CNV deletion 23128226
esv2673081 CNV deletion 23128226
esv2747355 CNV deletion 23290073
esv3631971 CNV loss 21293372
esv3631972 CNV loss 21293372
nsv455876 CNV gain 19166990
nsv561581 CNV gain 21841781
nsv832597 CNV loss 17160897
nsv832598 CNV gain 17160897

Variation tolerance for ZC3H13 Gene

Residual Variation Intolerance Score: 3.27% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.16; 51.69% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZC3H13 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZC3H13 Gene

Disorders for ZC3H13 Gene

MalaCards: The human disease database

(1) MalaCards diseases for ZC3H13 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
wilms tumor 1
  • wt1
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ZC3H13

genes like me logo Genes that share disorders with ZC3H13: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZC3H13 Gene

Publications for ZC3H13 Gene

  1. Prediction of the coding sequences of unidentified human genes. XII. The complete sequences of 100 new cDNA clones from brain which code for large proteins in vitro. (PMID: 10048485) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1998) 2 3 4 58
  2. Identification of Wilms' tumor 1-associating protein complex and its role in alternative splicing and the cell cycle. (PMID: 24100041) Horiuchi K … Hamakubo T (The Journal of biological chemistry 2013) 3 4 58
  3. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. (PMID: 16964243) Beausoleil SA … Gygi SP (Nature biotechnology 2006) 3 4 58
  4. Global, in vivo, and site-specific phosphorylation dynamics in signaling networks. (PMID: 17081983) Olsen JV … Mann M (Cell 2006) 3 4 58
  5. The DNA sequence and analysis of human chromosome 13. (PMID: 15057823) Dunham A … Ross MT (Nature 2004) 3 4 58

Products for ZC3H13 Gene

Sources for ZC3H13 Gene

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