Free for academic non-profit institutions. Other users need a Commercial license

Aliases for ZNF397 Gene

Aliases for ZNF397 Gene

  • Zinc Finger Protein 397 2 3
  • Zinc Finger Protein 47 2 3 4
  • Zinc Finger And SCAN Domain-Containing Protein 15 3 4
  • ZSCAN15 3 4
  • ZNF47 3 4

External Ids for ZNF397 Gene

Previous HGNC Symbols for ZNF397 Gene

  • ZNF47

Previous GeneCards Identifiers for ZNF397 Gene

  • GC18P032855
  • GC18P032640
  • GC18P031072
  • GC18P031073
  • GC18P031074
  • GC18P032820
  • GC18P029679

Summaries for ZNF397 Gene

Entrez Gene Summary for ZNF397 Gene

  • This gene encodes a protein with a N-terminal SCAN domain, and the longer isoform contains nine C2H2-type zinc finger repeats in the C-terminal domain. The protein localizes to centromeres during interphase and early prophase, and different isoforms can repress or activate transcription in transfection studies. Multiple transcript variants encoding different isoforms have been found for this gene. Additional variants have been described, but their biological validity has not been determined. [provided by RefSeq, Oct 2009]

GeneCards Summary for ZNF397 Gene

ZNF397 (Zinc Finger Protein 397) is a Protein Coding gene. GO annotations related to this gene include sequence-specific DNA binding transcription factor activity. An important paralog of this gene is ZNF396.

UniProtKB/Swiss-Prot for ZNF397 Gene

  • Isoform 3 acts as a DNA-dependent transcriptional repressor.

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZNF397 Gene

Genomics for ZNF397 Gene

Regulatory Elements for ZNF397 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for ZNF397 Gene

35,241,030 bp from pter
35,267,133 bp from pter
26,104 bases
Plus strand

Genomic View for ZNF397 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for ZNF397 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZNF397 Gene

Proteins for ZNF397 Gene

  • Protein details for ZNF397 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein 397
    Protein Accession:
    Secondary Accessions:
    • Q9BRM2

    Protein attributes for ZNF397 Gene

    534 amino acids
    Molecular mass:
    61139 Da
    Quaternary structure:
    • Isoforms 1 and 3 can both homo- and hetero-associate. Homo-association of isoform 1 is dependent on the presence of the SCAN domain.

    Alternative splice isoforms for ZNF397 Gene


neXtProt entry for ZNF397 Gene

Proteomics data for ZNF397 Gene at MOPED

Post-translational modifications for ZNF397 Gene

  • Ubiquitination at Lys225 and Lys395
  • Modification sites at PhosphoSitePlus

Antibody Products

No data available for DME Specific Peptides for ZNF397 Gene

Domains for ZNF397 Gene

Gene Families for ZNF397 Gene

  • ZNF :Zinc fingers, C2H2-type

Suggested Antigen Peptide Sequences for ZNF397 Gene

Graphical View of Domain Structure for InterPro Entry



  • Q8NF99
  • Contains 1 SCAN box domain.
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
  • Contains 9 C2H2-type zinc fingers.
genes like me logo Genes that share domains with ZNF397: view

Function for ZNF397 Gene

Molecular function for ZNF397 Gene

UniProtKB/Swiss-Prot Function: Isoform 3 acts as a DNA-dependent transcriptional repressor.

Gene Ontology (GO) - Molecular Function for ZNF397 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0003700 sequence-specific DNA binding transcription factor activity IEA --
GO:0005515 protein binding IPI 25416956
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZNF397: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for ZNF397 Gene

Localization for ZNF397 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZNF397 Gene

Isoform 1: Nucleus.
Isoform 3: Nucleus. Cytoplasm.

Subcellular locations from

Jensen Localization Image for ZNF397 Gene COMPARTMENTS Subcellular localization image for ZNF397 gene
Compartment Confidence
nucleus 5
cytosol 2
cytoskeleton 1
plasma membrane 1

Gene Ontology (GO) - Cellular Components for ZNF397 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 ZNF397: view

Pathways for ZNF397 Gene

SuperPathways for ZNF397 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZNF397 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 ZNF397: view

No data available for Pathways by source for ZNF397 Gene

Transcripts for ZNF397 Gene

Unigene Clusters for ZNF397 Gene

Zinc finger protein 397:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for ZNF397

Primer Products

  • QuantiTect SYBR Green Assays in human,mouse,rat
  • Pre-validated RT² qPCR Primer Assay in human,mouse,rat
  • QuantiFast Probe-based Assays in human,mouse,rat

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZNF397 Gene

ExUns: 1 ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c ^ 5
SP1: - - -
SP2: - -

Relevant External Links for ZNF397 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZNF397 Gene

mRNA expression in normal human tissues for ZNF397 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for ZNF397 Gene

SOURCE GeneReport for Unigene cluster for ZNF397 Gene Hs.591061

mRNA Expression by UniProt/SwissProt for ZNF397 Gene

Tissue specificity: Expressed strongly in testis, moderately in skeletal muscle, pancreas and prostate, and weakly in heart, placenta, liver, kidney, spleen, thymus and small intestine.
genes like me logo Genes that share expressions with ZNF397: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for ZNF397 Gene

Orthologs for ZNF397 Gene

This gene was present in the common ancestor of mammals.

Orthologs for ZNF397 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZNF397 35
  • 99.75 (n)
  • 99.81 (a)
ZNF397 36
  • 85 (a)
(Bos Taurus)
Mammalia ZNF397 35
  • 86.87 (n)
  • 85.74 (a)
(Canis familiaris)
Mammalia ZNF397 35
  • 90.83 (n)
  • 89.75 (a)
ZNF397 36
  • 89 (a)
(Mus musculus)
Mammalia Zfp397 35
  • 87.07 (n)
  • 84.79 (a)
Zfp397 16
Zfp397 36
  • 85 (a)
(Monodelphis domestica)
Mammalia -- 36
  • 38 (a)
-- 36
  • 37 (a)
(Rattus norvegicus)
Mammalia Zfp397 35
  • 86.19 (n)
  • 85.17 (a)
Species with no ortholog for ZNF397:
  • 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)
  • 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)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • platypus (Ornithorhynchus anatinus)
  • rainbow trout (Oncorhynchus mykiss)
  • 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 ZNF397 Gene

Gene Tree for ZNF397 (if available)
Gene Tree for ZNF397 (if available)

Paralogs for ZNF397 Gene

Selected SIMAP similar genes for ZNF397 Gene using alignment to 5 proteins: Pseudogenes for ZNF397 Gene

genes like me logo Genes that share paralogs with ZNF397: view

Variants for ZNF397 Gene

Sequence variations from dbSNP and Humsavar for ZNF397 Gene

SNP ID Clin Chr 18 pos Sequence Context AA Info Type MAF
rs1054890 -- 35,243,941(+) TCATG(C/T)TAATT intron-variant
rs1060178 -- 35,248,583(+) cacct(A/G)taatg intron-variant
rs1060758 -- 35,246,672(+) GGGCT(G/T)GTGTG utr-variant-3-prime, intron-variant
rs1060760 -- 35,246,697(+) CTTCG(A/T)CTCAG utr-variant-3-prime, intron-variant
rs1062236 -- 35,245,573(+) ATGTA(A/T)GTGGG missense, reference, intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ZNF397 Gene

Variant ID Type Subtype PubMed ID
esv270226 CNV Insertion 20981092

Relevant External Links for ZNF397 Gene

HapMap Linkage Disequilibrium report

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZNF397 Gene

Disorders for ZNF397 Gene

No disorders were found for ZNF397 Gene.

No data available for UniProtKB/Swiss-Prot for ZNF397 Gene

Publications for ZNF397 Gene

  1. 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 23
  2. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4
  3. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. (PMID: 16344560) Kimura K. … Sugano S. (Genome Res. 2006) 3
  4. Toward a confocal subcellular atlas of the human proteome. (PMID: 18029348) Barbe L. … Andersson-Svahn H. (Mol. Cell Proteomics 2008) 3
  5. ZNF397, a new class of interphase to early prophase-specific, SCAN-zinc-finger, mammalian centromere protein. (PMID: 18369653) Bailey S.L. … Kalitsis P. (Chromosoma 2008) 3

Products for ZNF397 Gene

Sources for ZNF397 Gene

Back to Top