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 ... See more...

Aliases for ZNF397 Gene

Aliases for ZNF397 Gene

  • Zinc Finger Protein 397 2 3 4 5
  • Zinc Finger Protein 47 2 3 4
  • ZSCAN15 2 3 4
  • Zinc Finger And SCAN Domain-Containing Protein 15 3 4
  • ZNF47 3 4
  • MGC13250 2
  • ZNF397 5

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. Diseases associated with ZNF397 include Gastric Antral Vascular Ectasia. Gene Ontology (GO) annotations related to this gene include DNA-binding transcription factor activity. An important paralog of this gene is ZSCAN12.

UniProtKB/Swiss-Prot Summary for ZNF397 Gene

Additional gene information for ZNF397 Gene

No data available for CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZNF397 Gene

Genomics for ZNF397 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZNF397 Gene
- Elite GeneHancer and/or Elite GeneHancer-gene association Download GeneHancer data from 2017 publication | Request up-to-date GeneHancer data (full dataset)

GeneHancers around ZNF397 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZNF397

Top Transcription factor binding sites by QIAGEN in the ZNF397 gene promoter:
  • E47
  • HEN1
  • STAT5A
  • Tal-1beta

Genomic Locations for ZNF397 Gene

Genomic Locations for ZNF397 Gene
chr18:35,240,704-35,267,133
(GRCh38/hg38)
Size:
26,430 bases
Orientation:
Plus strand
chr18:32,820,994-32,847,097
(GRCh37/hg19)
Size:
26,104 bases
Orientation:
Plus strand

Genomic View for ZNF397 Gene

Genes around ZNF397 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZNF397 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
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:
    Q8NF99-ZN397_HUMAN
    Recommended name:
    Zinc finger protein 397
    Protein Accession:
    Q8NF99
    Secondary Accessions:
    • Q9BRM2

    Protein attributes for ZNF397 Gene

    Size:
    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

    UniProtKB/Swiss-Prot:

neXtProt entry for ZNF397 Gene

Post-translational modifications for ZNF397 Gene

  • Ubiquitination at Lys225
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for ZNF397 Gene

Domains & Families for ZNF397 Gene

Gene Families for ZNF397 Gene

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

Protein Domains for ZNF397 Gene

InterPro:
Blocks:
  • C2H2-type zinc finger signature
  • Transcriptional regulator SCAN
ProtoNet:

Suggested Antigen Peptide Sequences for ZNF397 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ14478 fis, clone MAMMA1001633, moderately similar to ZINC FINGER PROTEIN 165 (Q96K65_HUMAN)
  • Zinc finger protein 47 (ZN397_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q8NF99

UniProtKB/Swiss-Prot:

ZN397_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 ZNF397: view

Function for ZNF397 Gene

Molecular function for ZNF397 Gene

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

Phenotypes From GWAS Catalog for ZNF397 Gene

Gene Ontology (GO) - Molecular Function for ZNF397 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA --
GO:0003700 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
genes like me logo Genes that share phenotypes with ZNF397: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZNF397

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

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 ZNF397 gene
Compartment Confidence
nucleus 5
cytosol 5
plasma membrane 4
cytoskeleton 4

Subcellular locations from the

Human Protein Atlas (HPA)
  • Cytosol (2)
  • Microtubules (2)
  • Nucleoli (2)
  • Plasma membrane (2)
See all subcellular structures

Gene Ontology (GO) - Cellular Components for ZNF397 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
GO:0005730 nucleolus IDA --
GO:0005737 cytoplasm IEA --
GO:0005829 cytosol IDA --
GO:0005886 plasma membrane IDA --
genes like me logo Genes that share ontologies with ZNF397: view

Pathways & Interactions for ZNF397 Gene

PathCards logo

SuperPathways for ZNF397 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZNF397 Gene

GO ID Qualified GO term Evidence PubMed IDs
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 and SIGNOR curated interactions for ZNF397 Gene

Drugs & Compounds for ZNF397 Gene

No Compound Related Data Available

Transcripts for ZNF397 Gene

mRNA/cDNA for ZNF397 Gene

2 REFSEQ mRNAs :
8 NCBI additional mRNA sequence :
12 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 ZNF397

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

ExUns: 1 ^ 2 ^ 3a · 3b · 3c · 3d ^ 4a · 4b · 4c ^ 5
SP1: - - -
SP2: - -
SP3:
SP4:

Relevant External Links for ZNF397 Gene

GeneLoc Exon Structure for
ZNF397

Expression for ZNF397 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZNF397 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZNF397 Gene

This gene is overexpressed in Peripheral blood mononuclear cells (52.2) and Blymphocyte (16.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ZNF397 Gene



Protein tissue co-expression partners for ZNF397 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZNF397

SOURCE GeneReport for Unigene cluster for ZNF397 Gene:

Hs.591061

mRNA Expression by UniProt/SwissProt for ZNF397 Gene:

Q8NF99-ZN397_HUMAN
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.

Evidence on tissue expression from TISSUES for ZNF397 Gene

  • Nervous system(2)
genes like me logo Genes that share expression patterns with ZNF397: view

No data available for mRNA differential expression in normal tissues and Phenotype-based relationships between genes and organs from Gene ORGANizer 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
Chimpanzee
(Pan troglodytes)
Mammalia ZNF397 30 31
  • 99.75 (n)
OneToOne
Dog
(Canis familiaris)
Mammalia ZNF397 30 31
  • 90.83 (n)
OneToOne
Mouse
(Mus musculus)
Mammalia Zfp397 30 17 31
  • 87.07 (n)
OneToOne
Cow
(Bos Taurus)
Mammalia ZNF397 30
  • 86.87 (n)
Rat
(Rattus norvegicus)
Mammalia Zfp397 30
  • 86.19 (n)
Oppossum
(Monodelphis domestica)
Mammalia -- 31
  • 38 (a)
OneToMany
-- 31
  • 37 (a)
OneToMany
Species where no ortholog for ZNF397 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)
  • 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 Vase (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

ENSEMBL:
Gene Tree for ZNF397 (if available)
TreeFam:
Gene Tree for ZNF397 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZNF397: view image

Paralogs for ZNF397 Gene

(490) SIMAP similar genes for ZNF397 Gene using alignment to 5 proteins:

  • ZN397_HUMAN
  • K7EIM5_HUMAN
  • K7ERU5_HUMAN
  • M0R288_HUMAN
  • Q96K65_HUMAN

Pseudogenes.org Pseudogenes for ZNF397 Gene

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

Variants for ZNF397 Gene

Additional dbSNP identifiers (rs#s) for ZNF397 Gene

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

Variant ID Type Subtype PubMed ID
esv3305949 CNV mobile element insertion 20981092
esv3390534 CNV insertion 20981092
esv3642197 CNV gain 21293372

Variation tolerance for ZNF397 Gene

Gene Damage Index Score: 0.56; 12.07% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZNF397 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZNF397

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot and Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZNF397 Gene

Disorders for ZNF397 Gene

MalaCards: The human disease database

(1) MalaCards diseases for ZNF397 Gene - From: DISEASES

Disorder Aliases PubMed IDs
gastric antral vascular ectasia
  • watermelon stomach
- elite association - COSMIC cancer census association via MalaCards
genes like me logo Genes that share disorders with ZNF397: view

No data available for UniProtKB/Swiss-Prot and Genatlas 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 DS … MGC Project Team (Genome research 2004) 3 4
  3. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  4. Architecture of the human interactome defines protein communities and disease networks. (PMID: 28514442) Huttlin EL … Harper JW (Nature 2017) 3
  5. Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation. (PMID: 28112733) Hendriks IA … Nielsen ML (Nature structural & molecular biology 2017) 4

Products for ZNF397 Gene

  • Boster Bio Antibodies for ZNF397
  • Boster Bio ELISA Kits for ZNF397
  • Signalway Proteins for ZNF397

Sources for ZNF397 Gene