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Aliases for ZNF396 Gene

Aliases for ZNF396 Gene

  • Zinc Finger Protein 396 2 3 5
  • Zinc Finger And SCAN Domain-Containing Protein 14 3 4
  • ZSCAN14 3 4

External Ids for ZNF396 Gene

Previous GeneCards Identifiers for ZNF396 Gene

  • GC18M032978
  • GC18M032766
  • GC18M032721
  • GC18M031198
  • GC18M031200
  • GC18M032946
  • GC18M029806

Summaries for ZNF396 Gene

GeneCards Summary for ZNF396 Gene

ZNF396 (Zinc Finger Protein 396) is a Protein Coding gene. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is ZNF24.

UniProtKB/Swiss-Prot for ZNF396 Gene

  • Isoform 1 and isoform 2 act as DNA-dependent transcriptional repressors.

Additional gene information for ZNF396 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 ZNF396 Gene

Genomics for ZNF396 Gene

Regulatory Elements for ZNF396 Gene

Enhancers for ZNF396 Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH18H035343 1.8 FANTOM5 ENCODE dbSUPER 19.4 +32.4 32448 3.4 HDGF PKNOX1 FOXA2 ARNT ARID4B SIN3A DMAP1 YY1 SLC30A9 ZNF766 ZNF397 ZNF396 ELP2 ZNF24 MAPRE2 ZNF271P GC18M035337
GH18H035407 1.4 FANTOM5 Ensembl ENCODE 12 -31.7 -31654 2.8 ELF3 HDGF PKNOX1 ATF1 RB1 ARID4B RAD21 RFX5 ZNF143 RUNX3 ZNF396 GALNT1 LOC105372063 RPL7AP67
GH18H035512 1.6 FANTOM5 Ensembl ENCODE dbSUPER 10.5 -137.2 -137201 4.4 TBP JUN MAX KLF17 RAD21 ZIC2 GLIS2 GATA3 ZNF316 SMC3 GALNT1 ZNF396 INO80C
GH18H035495 1.4 ENCODE dbSUPER 10.4 -119.7 -119709 3.1 MLX FEZF1 DMAP1 YY1 SLC30A9 ZNF416 ZNF143 SP3 ZC3H11A MEF2D ZNF397 ENSG00000268573 ELP2 ZSCAN30 RPRD1A C18orf21 ZNF271P ZNF396 INO80C ENSG00000267140
GH18H035230 1.2 Ensembl ENCODE 10.7 +146.2 146159 0.4 ATF1 FOXA2 RB1 ARID4B BMI1 BRCA1 RAD21 CHAMP1 RFX5 SCRT2 ZNF396 ZSCAN30 ZNF397 PIR47170
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZNF396 on UCSC Golden Path with GeneCards custom track

Promoters for ZNF396 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00000102198 237 1400 ARID4B SIN3A FEZF1 GLIS2 ELK1 RUNX3 SP3 SP5 NCOA1 KAT8

Genomic Locations for ZNF396 Gene

Genomic Locations for ZNF396 Gene
10,641 bases
Minus strand

Genomic View for ZNF396 Gene

Genes around ZNF396 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZNF396 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZNF396 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZNF396 Gene

Proteins for ZNF396 Gene

  • Protein details for ZNF396 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein 396
    Protein Accession:
    Secondary Accessions:
    • A1L3V0
    • Q8NF98
    • Q8TD80

    Protein attributes for ZNF396 Gene

    335 amino acids
    Molecular mass:
    38612 Da
    Quaternary structure:
    • Isoforms 1 and 2 can both homo- and hetero-associate.

    Alternative splice isoforms for ZNF396 Gene


neXtProt entry for ZNF396 Gene

Post-translational modifications for ZNF396 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZNF396 Gene

Domains & Families for ZNF396 Gene

Gene Families for ZNF396 Gene

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

Protein Domains for ZNF396 Gene

Suggested Antigen Peptide Sequences for ZNF396 Gene

GenScript: Design optimal peptide antigens:

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 ZNF396: view

Function for ZNF396 Gene

Molecular function for ZNF396 Gene

UniProtKB/Swiss-Prot Function:
Isoform 1 and isoform 2 act as DNA-dependent transcriptional repressors.

Phenotypes From GWAS Catalog for ZNF396 Gene

Gene Ontology (GO) - Molecular Function for ZNF396 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003700 transcription factor activity, sequence-specific DNA binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZNF396: view

Phenotypes for ZNF396 Gene

GenomeRNAi human phenotypes for ZNF396:
genes like me logo Genes that share phenotypes with ZNF396: view

miRNA for ZNF396 Gene

miRTarBase miRNAs that target ZNF396

Clone Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZNF396 Gene

Localization for ZNF396 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZNF396 Gene

Isoform 1: Nucleus.
Isoform 2: Nucleus. Cytoplasm.

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 ZNF396 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for ZNF396 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005737 cytoplasm IEA --
genes like me logo Genes that share ontologies with ZNF396: view

No data available for Subcellular locations from the Human Protein Atlas (HPA) for ZNF396 Gene

Pathways & Interactions for ZNF396 Gene

SuperPathways for ZNF396 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZNF396 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
genes like me logo Genes that share ontologies with ZNF396: view

No data available for Pathways by source and SIGNOR curated interactions for ZNF396 Gene

Drugs & Compounds for ZNF396 Gene

No Compound Related Data Available

Transcripts for ZNF396 Gene

Unigene Clusters for ZNF396 Gene

Zinc finger protein 396:
Representative Sequences:

Clone Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZNF396 Gene

No ASD Table

Relevant External Links for ZNF396 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZNF396 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for ZNF396 Gene

NURSA nuclear receptor signaling pathways regulating expression of ZNF396 Gene:


SOURCE GeneReport for Unigene cluster for ZNF396 Gene:


mRNA Expression by UniProt/SwissProt for ZNF396 Gene:

Tissue specificity: Expressed strongly in liver, moderately in skeletal muscle and weakly in kidney, pancreas, spleen and prostate.

Evidence on tissue expression from TISSUES for ZNF396 Gene

  • Kidney(4.1)
  • Nervous system(4.1)
genes like me logo Genes that share expression patterns with ZNF396: view

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues , 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 ZNF396 Gene

Orthologs for ZNF396 Gene

This gene was present in the common ancestor of mammals.

Orthologs for ZNF396 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZNF396 33 34
  • 99 (n)
(Canis familiaris)
Mammalia ZNF396 33 34
  • 81.22 (n)
(Monodelphis domestica)
Mammalia ZNF396 34
  • 59 (a)
Species where no ortholog for ZNF396 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)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • cow (Bos Taurus)
  • 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)
  • lizard (Anolis carolinensis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • mouse (Mus musculus)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • 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)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)
  • zebrafish (Danio rerio)

Evolution for ZNF396 Gene

Gene Tree for ZNF396 (if available)
Gene Tree for ZNF396 (if available)

Paralogs for ZNF396 Gene Pseudogenes for ZNF396 Gene

genes like me logo Genes that share paralogs with ZNF396: view

Variants for ZNF396 Gene

Sequence variations from dbSNP and Humsavar for ZNF396 Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type
rs1000070577 -- 35,367,063(+) GTAAT(G/T)AAGCA utr-variant-3-prime
rs1000126258 -- 35,375,330(+) ATCAC(A/G)TTCCT intron-variant
rs1000421987 -- 35,367,374(+) CTGGA(A/G)ATACT downstream-variant-500B, utr-variant-3-prime
rs1001014216 -- 35,369,056(+) TGCTG(A/C)CCTGA intron-variant, utr-variant-3-prime
rs1001119409 -- 35,376,866(+) GACGC(A/T)GGGGT intron-variant, utr-variant-5-prime

Structural Variations from Database of Genomic Variants (DGV) for ZNF396 Gene

Variant ID Type Subtype PubMed ID
esv3642200 CNV loss 21293372
esv2660816 CNV deletion 23128226

Variation tolerance for ZNF396 Gene

Residual Variation Intolerance Score: 74.1% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 3.28; 53.02% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZNF396 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZNF396 Gene

Disorders for ZNF396 Gene

Relevant External Links for ZNF396

Atlas of Genetics and Cytogenetics in Oncology and Haematology:

No disorders were found for ZNF396 Gene.

No data available for MalaCards , UniProtKB/Swiss-Prot and Genatlas for ZNF396 Gene

Publications for ZNF396 Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T … Sugano S (Nature genetics 2004) 3 4 60
  2. Identification and characterization of two novel human SCAN domain-containing zinc finger genes ZNF396 and ZNF397. (PMID: 12801647) Wu Y … Zhao S (Gene 2003) 3 4 60
  3. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3 60
  4. The BioPlex Network: A Systematic Exploration of the Human Interactome. (PMID: 26186194) Huttlin EL … Gygi SP (Cell 2015) 3 60
  5. Expression of ZNF396 in basal cell carcinoma. (PMID: 24445935) Bai J … Takeuchi T (Archives of dermatological research 2014) 3 60

Products for ZNF396 Gene

Sources for ZNF396 Gene

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