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Aliases for ZCCHC9 Gene

Aliases for ZCCHC9 Gene

  • Zinc Finger CCHC-Type Containing 9 2 3 5
  • Protein Phosphatase 1, Regulatory Subunit 41 2 3
  • Zinc Finger CCHC Domain-Containing Protein 9 3
  • Zinc Finger, CCHC Domain Containing 9 3
  • PPP1R41 3

External Ids for ZCCHC9 Gene

Previous GeneCards Identifiers for ZCCHC9 Gene

  • GC05P080682
  • GC05P080633
  • GC05P075807
  • GC05P080597

Summaries for ZCCHC9 Gene

GeneCards Summary for ZCCHC9 Gene

ZCCHC9 (Zinc Finger CCHC-Type Containing 9) is a Protein Coding gene. Gene Ontology (GO) annotations related to this gene include nucleic acid binding.

UniProtKB/Swiss-Prot for ZCCHC9 Gene

  • May down-regulate transcription mediated by NF-kappa-B and the serum response element.

Additional gene information for ZCCHC9 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 ZCCHC9 Gene

Genomics for ZCCHC9 Gene

GeneHancer (GH) Regulatory Elements for ZCCHC9 Gene

Promoters and enhancers for ZCCHC9 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
GH05I081300 Promoter/Enhancer 2.1 EPDnew Ensembl ENCODE 573.6 +1.1 1095 4.7 HDGF PKNOX1 FOXA2 ARID4B SIN3A DMAP1 ZNF2 YY1 POLR2B E2F8 CKMT2-AS1 ZCCHC9 ENSG00000248794 GC05M081320
GH05I081299 Enhancer 0.7 ENCODE 550.8 -1.9 -1854 0.9 CTCF PKNOX1 SAP130 ARID4B SIN3A ZNF2 RAD21 RFX5 ZNF664 GATA3 CKMT2-AS1 ZCCHC9 ENSG00000248794
GH05I082276 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 36.7 +976.4 976394 3.6 SMAD1 ARNT ARID4B SIN3A DMAP1 YY1 POLR2B ZNF213 ZNF207 ZNF143 ATP6AP1L RPS23 GC05P082278 GC05M082258 ZCCHC9 ATG10 CKMT2-AS1 ENSG00000251374
GH05I081748 Promoter/Enhancer 2.3 EPDnew Ensembl ENCODE dbSUPER 28.5 +449.0 448956 4.5 CLOCK FEZF1 IRF4 YY1 ZNF213 SP3 ZNF610 GLIS1 NR2C1 NBN SSBP2 ZCCHC9 CKMT2-AS1 RPS23 ATG10 GC05M081517
GH05I080487 Promoter/Enhancer 2 EPDnew Ensembl ENCODE 25.3 -812.6 -812629 3.7 ARID4B SIN3A DMAP1 ZNF2 YY1 SLC30A9 ZNF213 SP3 NFYC MXD4 FAM151B LOC105379049 ZCCHC9 PAPD4 CKMT2-AS1 MTX3 ZFYVE16 DHFR RPS27AP9
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data dump

GeneHancers around ZCCHC9 on UCSC Golden Path with GeneCards custom track

Top Transcription factor binding sites by QIAGEN in the ZCCHC9 gene promoter:

Genomic Locations for ZCCHC9 Gene

Genomic Locations for ZCCHC9 Gene
11,762 bases
Plus strand

Genomic View for ZCCHC9 Gene

Genes around ZCCHC9 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZCCHC9 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZCCHC9 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZCCHC9 Gene

Proteins for ZCCHC9 Gene

  • Protein details for ZCCHC9 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger CCHC domain-containing protein 9
    Protein Accession:
    Secondary Accessions:
    • B2RAE7
    • Q9H027

    Protein attributes for ZCCHC9 Gene

    271 amino acids
    Molecular mass:
    30477 Da
    Quaternary structure:
    No Data Available

neXtProt entry for ZCCHC9 Gene

Post-translational modifications for ZCCHC9 Gene

No Post-translational modifications

Other Protein References for ZCCHC9 Gene

No data available for DME Specific Peptides for ZCCHC9 Gene

Domains & Families for ZCCHC9 Gene

Gene Families for ZCCHC9 Gene

Protein Domains for ZCCHC9 Gene

Suggested Antigen Peptide Sequences for ZCCHC9 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with ZCCHC9: view

No data available for UniProtKB/Swiss-Prot for ZCCHC9 Gene

Function for ZCCHC9 Gene

Molecular function for ZCCHC9 Gene

UniProtKB/Swiss-Prot Function:
May down-regulate transcription mediated by NF-kappa-B and the serum response element.

Gene Ontology (GO) - Molecular Function for ZCCHC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003723 RNA binding HDA,IDA 22658674
GO:0008270 zinc ion binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZCCHC9: view
genes like me logo Genes that share phenotypes with ZCCHC9: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

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 ZCCHC9 Gene

Localization for ZCCHC9 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZCCHC9 Gene

Nucleus, nucleolus. Nucleus. Note=Expressed throughout the nucleus and concentrated mainly in the nucleolus. {ECO:0000269 PubMed:18721783}.

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 ZCCHC9 gene
Compartment Confidence
nucleus 5
plasma membrane 1
extracellular 1
peroxisome 1
cytosol 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)
  • Intermediate filaments (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZCCHC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005730 nucleolus IEA --
genes like me logo Genes that share ontologies with ZCCHC9: view

Pathways & Interactions for ZCCHC9 Gene

SuperPathways for ZCCHC9 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZCCHC9 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0010923 negative regulation of phosphatase activity IDA 19389623
genes like me logo Genes that share ontologies with ZCCHC9: view

No data available for Pathways by source and SIGNOR curated interactions for ZCCHC9 Gene

Drugs & Compounds for ZCCHC9 Gene

No Compound Related Data Available

Transcripts for ZCCHC9 Gene

Unigene Clusters for ZCCHC9 Gene

Zinc finger, CCHC domain containing 9:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZCCHC9 Gene

ExUns: 1a · 1b · 1c · 1d · 1e · 1f · 1g ^ 2a · 2b ^ 3 ^ 4a · 4b · 4c ^ 5 ^ 6 ^ 7a · 7b
SP1: - - - -
SP3: - - - - -
SP5: - - - - -
SP6: -
SP7: - -

Relevant External Links for ZCCHC9 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZCCHC9 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZCCHC9 Gene

Protein differential expression in normal tissues from HIPED for ZCCHC9 Gene

This gene is overexpressed in Lung (67.0).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, MaxQB, and MOPED for ZCCHC9 Gene

Protein tissue co-expression partners for ZCCHC9 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZCCHC9 Gene:


SOURCE GeneReport for Unigene cluster for ZCCHC9 Gene:


Evidence on tissue expression from TISSUES for ZCCHC9 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with ZCCHC9: view

Primer Products

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 ZCCHC9 Gene

Orthologs for ZCCHC9 Gene

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

Orthologs for ZCCHC9 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZCCHC9 33 34
  • 99.75 (n)
(Bos Taurus)
Mammalia ZCCHC9 33 34
  • 91.02 (n)
-- 34
  • 79 (a)
(Canis familiaris)
Mammalia ZCCHC9 33 34
  • 90.77 (n)
(Mus musculus)
Mammalia Zcchc9 33 16 34
  • 82.9 (n)
(Rattus norvegicus)
Mammalia Zcchc9 33
  • 82.9 (n)
(Monodelphis domestica)
Mammalia -- 34
  • 81 (a)
-- 34
  • 78 (a)
(Ornithorhynchus anatinus)
Mammalia ZCCHC9 34
  • 76 (a)
(Gallus gallus)
Aves ZCCHC9 33 34
  • 67.8 (n)
(Anolis carolinensis)
Reptilia ZCCHC9 34
  • 72 (a)
tropical clawed frog
(Silurana tropicalis)
Amphibia zcchc9 33
  • 63.21 (n)
Str.11804 33
(Danio rerio)
Actinopterygii zcchc9 33 34
  • 57.67 (n)
zgc56467 33
rainbow trout
(Oncorhynchus mykiss)
Actinopterygii Omy.13811 33
(Caenorhabditis elegans)
Secernentea F07E5.5 34
  • 22 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes SPAC683.02c 33
  • 52.07 (n)
sea squirt
(Ciona savignyi)
Ascidiacea -- 34
  • 48 (a)
sea squirt
(Ciona intestinalis)
Ascidiacea Cin.4394 33
Species where no ortholog for ZCCHC9 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)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • 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 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)

Evolution for ZCCHC9 Gene

Gene Tree for ZCCHC9 (if available)
Gene Tree for ZCCHC9 (if available)

Paralogs for ZCCHC9 Gene Pseudogenes for ZCCHC9 Gene

genes like me logo Genes that share paralogs with ZCCHC9: view

No data available for Paralogs for ZCCHC9 Gene

Variants for ZCCHC9 Gene

Sequence variations from dbSNP and Humsavar for ZCCHC9 Gene

SNP ID Clin Chr 05 pos Variation AA Info Type
rs1000015022 -- 81,301,671(+) G/A 5_prime_UTR_variant, splice_donor_variant
rs1000331796 -- 81,309,861(+) C/A/G/T intron_variant
rs1000472780 -- 81,301,553(+) C/A/G upstream_transcript_variant
rs1000839735 -- 81,308,187(+) ACA/A intron_variant
rs1000908402 -- 81,307,795(+) G/A intron_variant

Structural Variations from Database of Genomic Variants (DGV) for ZCCHC9 Gene

Variant ID Type Subtype PubMed ID
nsv598750 CNV gain 21841781
esv3890664 CNV gain 25118596

Variation tolerance for ZCCHC9 Gene

Residual Variation Intolerance Score: 86% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 4.52; 64.65% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZCCHC9 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZCCHC9 Gene

Disorders for ZCCHC9 Gene

Additional Disease Information for ZCCHC9

No disorders were found for ZCCHC9 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZCCHC9 Gene

Publications for ZCCHC9 Gene

  1. A nuclear localized protein ZCCHC9 is expressed in cerebral cortex and suppresses the MAPK signal pathway. (PMID: 18721783) Zhou A … Zhang J (Journal of genetics and genomics = Yi chuan xue bao 2008) 2 3 4 22 58
  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 58
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 58
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 58
  5. A human interactome in three quantitative dimensions organized by stoichiometries and abundances. (PMID: 26496610) Hein MY … Mann M (Cell 2015) 3 58

Products for ZCCHC9 Gene

Sources for ZCCHC9 Gene

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