Aliases for ZNF646 Gene

Aliases for ZNF646 Gene

  • Zinc Finger Protein 646 2 3 4 5
  • KIAA0296 2 4
  • ZNF646 5

External Ids for ZNF646 Gene

Previous GeneCards Identifiers for ZNF646 Gene

  • GC16P030995
  • GC16P031085
  • GC16P028647
  • GC16P031074
  • GC16P031079
  • GC16P031408
  • GC16P031529

Summaries for ZNF646 Gene

GeneCards Summary for ZNF646 Gene

ZNF646 (Zinc Finger Protein 646) is a Protein Coding gene. Diseases associated with ZNF646 include Spastic Paraplegia 62, Autosomal Recessive and Ataxia, Sensory, 1, Autosomal Dominant. Gene Ontology (GO) annotations related to this gene include nucleic acid binding. An important paralog of this gene is WIZ.

UniProtKB/Swiss-Prot Summary for ZNF646 Gene

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZNF646 Gene

Genomics for ZNF646 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZNF646 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 ZNF646 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZNF646

Top Transcription factor binding sites by QIAGEN in the ZNF646 gene promoter:
  • AP-4
  • AREB6
  • c-Myc
  • Egr-2
  • GATA-2
  • Max
  • NF-1
  • NF-1/L
  • Pbx1a
  • Sp1

Genomic Locations for ZNF646 Gene

Latest Assembly
10,532 bases
Plus strand

Previous Assembly
(GRCh37/hg19 by Entrez Gene)
9,775 bases
Plus strand

(GRCh37/hg19 by Ensembl)
9,775 bases
Plus strand

Genomic View for ZNF646 Gene

Genes around ZNF646 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZNF646 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZNF646 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZNF646 Gene

Proteins for ZNF646 Gene

  • Protein details for ZNF646 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein 646
    Protein Accession:
    Secondary Accessions:
    • Q8IVD8

    Protein attributes for ZNF646 Gene

    1832 amino acids
    Molecular mass:
    200825 Da
    Quaternary structure:
    No Data Available
    • Sequence=BAA20756.2; Type=Erroneous initiation; Note=Extended N-terminus.; Evidence={ECO:0000305};

    Alternative splice isoforms for ZNF646 Gene


neXtProt entry for ZNF646 Gene

Post-translational modifications for ZNF646 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZNF646 Gene

Domains & Families for ZNF646 Gene

Gene Families for ZNF646 Gene

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

Protein Domains for ZNF646 Gene

  • C2H2-type zinc finger signature

Suggested Antigen Peptide Sequences for ZNF646 Gene

GenScript: Design optimal peptide antigens:
  • Zinc finger protein 646 (ZN646_HUMAN)

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 ZNF646: view

Function for ZNF646 Gene

Molecular function for ZNF646 Gene

UniProtKB/Swiss-Prot Function:
May be involved in transcriptional regulation.

Phenotypes From GWAS Catalog for ZNF646 Gene

Gene Ontology (GO) - Molecular Function for ZNF646 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IBA 21873635
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific IBA 21873635
GO:0003677 DNA binding IEA --
GO:0005515 protein binding IPI 16189514
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZNF646: view
genes like me logo Genes that share phenotypes with ZNF646: view

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZNF646

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZNF646 Gene

Localization for ZNF646 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZNF646 Gene

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 ZNF646 gene
Compartment Confidence
nucleus 4
cytosol 3
plasma membrane 2

Subcellular locations from the

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

Gene Ontology (GO) - Cellular Components for ZNF646 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000785 chromatin IBA --
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with ZNF646: view

Pathways & Interactions for ZNF646 Gene

PathCards logo

SuperPathways for ZNF646 Gene

No Data Available

Gene Ontology (GO) - Biological Process for ZNF646 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006355 regulation of transcription, DNA-templated IBA 21873635
GO:0006357 regulation of transcription by RNA polymerase II IEA --
genes like me logo Genes that share ontologies with ZNF646: view

No data available for Pathways by source and SIGNOR curated interactions for ZNF646 Gene

Drugs & Compounds for ZNF646 Gene

No Compound Related Data Available

Transcripts for ZNF646 Gene

mRNA/cDNA for ZNF646 Gene

3 NCBI additional mRNA sequence :
4 Ensembl transcripts including schematic representations, and UCSC links to gene/alias where relevant :

Inhibitory RNAs for research

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZNF646

Alternative Splicing Database (ASD) splice patterns (SP) for ZNF646 Gene

ExUns: 1a · 1b ^ 2a · 2b
SP1: -

Relevant External Links for ZNF646 Gene

GeneLoc Exon Structure for

Expression for ZNF646 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZNF646 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Protein differential expression in normal tissues from HIPED for ZNF646 Gene

This gene is overexpressed in Bone marrow mesenchymal stem cell (27.7), Lung (15.3), Frontal cortex (7.4), and Serum (6.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for ZNF646 Gene

Protein tissue co-expression partners for ZNF646 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZNF646

SOURCE GeneReport for Unigene cluster for ZNF646 Gene:


Evidence on tissue expression from TISSUES for ZNF646 Gene

  • Nervous system(4.2)
genes like me logo Genes that share expression patterns with ZNF646: view

Primer products for research

No data available for mRNA differential expression in normal tissues , mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZNF646 Gene

Orthologs for ZNF646 Gene

This gene was present in the common ancestor of chordates.

Orthologs for ZNF646 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZNF646 30 31
  • 99.65 (n)
(Bos Taurus)
Mammalia ZNF646 30 31
  • 85.67 (n)
(Canis familiaris)
Mammalia ZNF646 30 31
  • 84.7 (n)
(Rattus norvegicus)
Mammalia Zfp646 30
  • 78.19 (n)
(Mus musculus)
Mammalia Zfp646 30 17 31
  • 77.88 (n)
(Monodelphis domestica)
Mammalia ZNF646 31
  • 59 (a)
(Ornithorhynchus anatinus)
Mammalia ZNF646 31
  • 58 (a)
(Anolis carolinensis)
Reptilia ZNF646 31
  • 60 (a)
Tropical Clawed Frog
(Silurana tropicalis)
Amphibia LOC101732255 30
  • 48.05 (n)
(Danio rerio)
Actinopterygii znf646p 31
  • 27 (a)
ZNF646 (2 of 2) 31
  • 25 (a)
Species where no ortholog for ZNF646 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)
  • 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)
  • 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)
  • Wheat (Triticum aestivum)
  • Worm (Caenorhabditis elegans)

Evolution for ZNF646 Gene

Gene Tree for ZNF646 (if available)
Gene Tree for ZNF646 (if available)
Evolutionary constrained regions (ECRs) for ZNF646: view image

Paralogs for ZNF646 Gene

(7) SIMAP similar genes for ZNF646 Gene using alignment to 3 proteins:

  • ZN646_HUMAN
  • C9J3L0_HUMAN
  • H3BSD0_HUMAN Pseudogenes for ZNF646 Gene

genes like me logo Genes that share paralogs with ZNF646: view

Variants for ZNF646 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZNF646 Gene

SNP ID Clinical significance and condition Chr 16 pos Variation AA Info Type
VAR_035594 A breast cancer sample p.Asn1337Ile
rs17641067 - p.Ile774Met
rs28407985 - p.Ala98Val
rs34259949 - p.Thr1788Met
rs35376811 - p.Arg1249Trp

dbSNP identifiers (rs#s) for variants without ClinVar clinical significance for ZNF646 Gene

All consequence types are included: molecular consequences (e.g. missense, synonymous), and location-based (e.g. intron, upstream).

Structural Variations from Database of Genomic Variants (DGV) for ZNF646 Gene

Variant ID Type Subtype PubMed ID
esv993244 CNV deletion 20482838
nsv457483 CNV loss 19166990
nsv571820 CNV loss 21841781
nsv827615 CNV gain 20364138
nsv833193 CNV gain+loss 17160897

Variation tolerance for ZNF646 Gene

Residual Variation Intolerance Score: 92.3% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 15.25; 97.01% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZNF646 Gene

Human Gene Mutation Database (HGMD)
SNPedia medical, phenotypic, and genealogical associations of SNPs for

SNP Genotyping and Copy Number Assays for research

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZNF646 Gene

Disorders for ZNF646 Gene

MalaCards: The human disease database

(4) MalaCards diseases for ZNF646 Gene - From: COP

- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ZNF646

Genetic Association Database
ATLAS of Genetics and Cytogenetics in Oncology and Haematology
Open Targets Platform
Open Targets Platform
genes like me logo Genes that share disorders with ZNF646: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZNF646 Gene

Publications for ZNF646 Gene

  1. Meta-analysis of Parkinson's disease: identification of a novel locus, RIT2. (PMID: 22451204) Pankratz N … PD GWAS Consortium (Annals of neurology 2012) 3 41
  2. Prediction of the coding sequences of unidentified human genes. VII. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9205841) Nagase T … Ohara O (DNA research : an international journal for rapid publication of reports on genes and genomes 1997) 3 4
  3. A reference map of the human binary protein interactome. (PMID: 32296183) Luck K … Calderwood MA (Nature 2020) 3
  4. Systematic bromodomain protein screens identify homologous recombination and R-loop suppression pathways involved in genome integrity. (PMID: 31753913) Kim JJ … Miller KM (Genes & development 2019) 3
  5. Extensive disruption of protein interactions by genetic variants across the allele frequency spectrum in human populations. (PMID: 31515488) Fragoza R … Yu H (Nature communications 2019) 3

Products for ZNF646 Gene

Sources for ZNF646 Gene