Aliases for ZKSCAN3 Gene

Aliases for ZKSCAN3 Gene

  • Zinc Finger With KRAB And SCAN Domains 3 2 3 5
  • Zinc Finger Protein 306 2 3 4
  • Zinc Finger Protein 309 2 3 4
  • Zinc Finger And SCAN Domain-Containing Protein 13 3 4
  • Zinc Finger Protein With KRAB And SCAN Domains 3 3 4
  • Zinc Finger Protein 47 Homolog 3 4
  • ZSCAN13 3 4
  • ZSCAN35 2 3
  • ZNF306 3 4
  • ZNF309 3 4
  • Zfp-47 3 4
  • Zfp47 2 3
  • ZF47 2 3
  • Zinc Finger Protein Zfp47 3
  • DJ874C20.1. 3
  • DJ874C20.1 3
  • ZKSCAN3 5
  • ZFP306 3
  • ZFP47 4
  • Zf47 4

External Ids for ZKSCAN3 Gene

Previous HGNC Symbols for ZKSCAN3 Gene

  • ZNF306
  • ZNF309

Previous GeneCards Identifiers for ZKSCAN3 Gene

  • GC06P028426
  • GC06P028317
  • GC06P028124

Summaries for ZKSCAN3 Gene

GeneCards Summary for ZKSCAN3 Gene

ZKSCAN3 (Zinc Finger With KRAB And SCAN Domains 3) is a Protein Coding gene. Diseases associated with ZKSCAN3 include Non-Invasive Bladder Papillary Urothelial Neoplasm and Ureteral Benign Neoplasm. Among its related pathways are Gene Expression. Gene Ontology (GO) annotations related to this gene include nucleic acid binding and sequence-specific DNA binding. An important paralog of this gene is ZKSCAN4.

UniProtKB/Swiss-Prot Summary for ZKSCAN3 Gene

  • Transcriptional factor that binds to the consensus sequence 5'-[GT][AG][AGT]GGGG-3' and acts as a repressor of autophagy. Specifically represses expression of genes involved in autophagy and lysosome biogenesis/function such as MAP1LC3B, ULK1 or WIPI2. Associates with chromatin at the ITGB4 and VEGF promoters. Also acts as a transcription activator and promotes cancer cell progression and/or migration in various tumors and myelomas.

No data available for Entrez Gene Summary , CIViC Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , Rfam classification and piRNA Summary for ZKSCAN3 Gene

Genomics for ZKSCAN3 Gene

GeneHancer (GH) Regulatory Elements Pubs

Promoters and enhancers for ZKSCAN3 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 ZKSCAN3 on the GeneHancer Hub at the UCSC Golden Path

Cistromic (ChIP-Seq) regulation report from SPP (The Signaling Pathways Project) for ZKSCAN3

Top Transcription factor binding sites by QIAGEN in the ZKSCAN3 gene promoter:
  • AP-2alphaA
  • AP-2beta
  • AP-2gamma
  • c-Ets-1
  • Cart-1
  • GCNF
  • GCNF-1
  • GCNF-2
  • LUN-1

Genomic Locations for ZKSCAN3 Gene

Genomic Locations for ZKSCAN3 Gene
chr6:28,349,913-28,369,174
(GRCh38/hg38)
Size:
19,262 bases
Orientation:
Plus strand
chr6:28,317,691-28,336,954
(GRCh37/hg19)
Size:
19,264 bases
Orientation:
Plus strand

Genomic View for ZKSCAN3 Gene

Genes around ZKSCAN3 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZKSCAN3 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZKSCAN3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZKSCAN3 Gene

Proteins for ZKSCAN3 Gene

  • Protein details for ZKSCAN3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q9BRR0-ZKSC3_HUMAN
    Recommended name:
    Zinc finger protein with KRAB and SCAN domains 3
    Protein Accession:
    Q9BRR0
    Secondary Accessions:
    • B2R8W2
    • B3KVC0
    • H7BXX1
    • Q5VXH3
    • Q92972
    • Q9H4T3

    Protein attributes for ZKSCAN3 Gene

    Size:
    538 amino acids
    Molecular mass:
    60641 Da
    Quaternary structure:
    No Data Available

    Alternative splice isoforms for ZKSCAN3 Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for ZKSCAN3 Gene

Post-translational modifications for ZKSCAN3 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

No data available for DME Specific Peptides for ZKSCAN3 Gene

Domains & Families for ZKSCAN3 Gene

Gene Families for ZKSCAN3 Gene

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

Protein Domains for ZKSCAN3 Gene

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

Suggested Antigen Peptide Sequences for ZKSCAN3 Gene

GenScript: Design optimal peptide antigens:
  • cDNA FLJ33906 fis, clone CTONG2008466, highly similar to Zinc finger protein 306 (B3KR99_HUMAN)
  • Zinc finger protein 47 homolog (ZKSC3_HUMAN)

Graphical View of Domain Structure for InterPro Entry

Q9BRR0

UniProtKB/Swiss-Prot:

ZKSC3_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 ZKSCAN3: view

Function for ZKSCAN3 Gene

Molecular function for ZKSCAN3 Gene

UniProtKB/Swiss-Prot Function:
Transcriptional factor that binds to the consensus sequence 5'-[GT][AG][AGT]GGGG-3' and acts as a repressor of autophagy. Specifically represses expression of genes involved in autophagy and lysosome biogenesis/function such as MAP1LC3B, ULK1 or WIPI2. Associates with chromatin at the ITGB4 and VEGF promoters. Also acts as a transcription activator and promotes cancer cell progression and/or migration in various tumors and myelomas.
UniProtKB/Swiss-Prot Induction:
Overexpressed in various tumors, such as multiple myeloma, colorectal and prostate cancers (at protein level).

Phenotypes From GWAS Catalog for ZKSCAN3 Gene

Gene Ontology (GO) - Molecular Function for ZKSCAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II proximal promoter sequence-specific DNA binding IDA 18940803
GO:0001227 DNA-binding transcription repressor activity, RNA polymerase II-specific IDA 18940803
GO:0003676 nucleic acid binding IEA --
GO:0003677 DNA binding IEA,IDA 18940803
GO:0003682 chromatin binding IDA 18940803
genes like me logo Genes that share ontologies with ZKSCAN3: view

Phenotypes for ZKSCAN3 Gene

genes like me logo Genes that share phenotypes with ZKSCAN3: view

Animal Model Products

CRISPR Products

Inhibitory RNA Products

  • Search GeneCopoeia for shRNA, lentivirus and/or AAV clone products for ZKSCAN3

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Animal Models , Transcription Factor Targets and HOMER Transcription for ZKSCAN3 Gene

Localization for ZKSCAN3 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZKSCAN3 Gene

Nucleus. Cytoplasm. Note=Mainly localizes in the nucleus. Under starvation conditions translocates to the cytoplasm, allowing expression of target genes involved in autophagy and lysosome biogenesis/function.

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 ZKSCAN3 gene
Compartment Confidence
nucleus 5
cytosol 2
lysosome 2
plasma membrane 1
extracellular 1
cytoskeleton 1
mitochondrion 1
peroxisome 1
endoplasmic reticulum 1
endosome 1
golgi apparatus 1

Subcellular locations from the

Human Protein Atlas (HPA)

Gene Ontology (GO) - Cellular Components for ZKSCAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA,IDA 18940803
GO:0005654 nucleoplasm IDA --
GO:0005737 cytoplasm IEA,IDA 23434374
genes like me logo Genes that share ontologies with ZKSCAN3: view

Pathways & Interactions for ZKSCAN3 Gene

PathCards logo

SuperPathways for ZKSCAN3 Gene

SuperPathway Contained pathways
1 Gene Expression
genes like me logo Genes that share pathways with ZKSCAN3: view

Pathways by source for ZKSCAN3 Gene

2 Reactome pathways for ZKSCAN3 Gene

Gene Ontology (GO) - Biological Process for ZKSCAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000122 negative regulation of transcription by RNA polymerase II IDA 18940803
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006914 autophagy IEA --
GO:0007040 lysosome organization IMP 23434374
GO:0010507 negative regulation of autophagy IMP 23434374
genes like me logo Genes that share ontologies with ZKSCAN3: view

No data available for SIGNOR curated interactions for ZKSCAN3 Gene

Drugs & Compounds for ZKSCAN3 Gene

No Compound Related Data Available

Transcripts for ZKSCAN3 Gene

mRNA/cDNA for ZKSCAN3 Gene

3 REFSEQ mRNAs :
10 NCBI additional mRNA sequence :
3 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 ZKSCAN3

Alternative Splicing Database (ASD) splice patterns (SP) for ZKSCAN3 Gene

No ASD Table

Relevant External Links for ZKSCAN3 Gene

GeneLoc Exon Structure for
ZKSCAN3

Expression for ZKSCAN3 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZKSCAN3 Gene

Protein differential expression in normal tissues from HIPED for ZKSCAN3 Gene

This gene is overexpressed in Heart (66.8).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, MaxQB, and MOPED for ZKSCAN3 Gene



Protein tissue co-expression partners for ZKSCAN3 Gene

- Elite partner

Transcriptomic regulation report from SPP (The Signaling Pathways Project) for ZKSCAN3

SOURCE GeneReport for Unigene cluster for ZKSCAN3 Gene:

Hs.380930
genes like me logo Genes that share expression patterns with ZKSCAN3: view

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 , Evidence on tissue expression from TISSUES and Phenotype-based relationships between genes and organs from Gene ORGANizer for ZKSCAN3 Gene

Orthologs for ZKSCAN3 Gene

This gene was present in the common ancestor of mammals.

Orthologs for ZKSCAN3 Gene

Organism Taxonomy Gene Similarity Type Details
Chimpanzee
(Pan troglodytes)
Mammalia ZKSCAN3 30 31
  • 99.26 (n)
OneToOne
Rat
(Rattus norvegicus)
Mammalia Zkscan3 30
  • 80.01 (n)
Mouse
(Mus musculus)
Mammalia Zkscan3 30 17 31
  • 79.8 (n)
ManyToMany
Cow
(Bos Taurus)
Mammalia -- 31
  • 75 (a)
OneToMany
Dog
(Canis familiaris)
Mammalia -- 31
  • 72 (a)
OneToMany
Species where no ortholog for ZKSCAN3 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)
  • Oppossum (Monodelphis domestica)
  • 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 ZKSCAN3 Gene

ENSEMBL:
Gene Tree for ZKSCAN3 (if available)
TreeFam:
Gene Tree for ZKSCAN3 (if available)
Aminode:
Evolutionary constrained regions (ECRs) for ZKSCAN3: view image

Paralogs for ZKSCAN3 Gene

(426) SIMAP similar genes for ZKSCAN3 Gene using alignment to 1 proteins:

  • ZKSC3_HUMAN
genes like me logo Genes that share paralogs with ZKSCAN3: view

Variants for ZKSCAN3 Gene

Sequence variations, with clinical significance, from ClinVar and Humsavar, with links to dbSNP for ZKSCAN3 Gene

SNP ID Clinical significance and condition Chr 06 pos Variation AA Info Type
rs13201752 - p.Lys200Glu
rs13201753 - p.Lys200Thr
rs17856167 - p.Val189Met
rs213227 - p.His246Gln
rs371085669 - p.Lys200Ala

Additional dbSNP identifiers (rs#s) for ZKSCAN3 Gene

Structural Variations from Database of Genomic Variants (DGV) for ZKSCAN3 Gene

Variant ID Type Subtype PubMed ID
nsv830620 CNV loss 17160897

Variation tolerance for ZKSCAN3 Gene

Residual Variation Intolerance Score: 21.4% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 6.13; 75.60% of all genes are more intolerant (likely to be disease-causing)

Additional Variant Information for ZKSCAN3 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for
ZKSCAN3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZKSCAN3 Gene

Disorders for ZKSCAN3 Gene

MalaCards: The human disease database

(6) MalaCards diseases for ZKSCAN3 Gene - From: DISEASES

Disorder Aliases PubMed IDs
non-invasive bladder papillary urothelial neoplasm
  • bladder papillary neoplasm of low malignant potential
ureteral benign neoplasm
  • neoplasm of ureter
chronic cervicitis
bladder papillary transitional cell neoplasm
  • urinary bladder papillary urothelial neoplasm
urinary tract papillary transitional cell benign neoplasm
  • inverted papilloma of urinary tract
- elite association - COSMIC cancer census association via MalaCards

Additional Disease Information for ZKSCAN3

genes like me logo Genes that share disorders with ZKSCAN3: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZKSCAN3 Gene

Publications for ZKSCAN3 Gene

  1. The zinc finger transcription factor ZKSCAN3 promotes prostate cancer cell migration. (PMID: 22531714) Zhang X … Yang L (The international journal of biochemistry & cell biology 2012) 2 3 4
  2. Computer sequence analysis of human highly conserved zinc finger modules. (PMID: 10520746) Petroni D … Comi P (DNA sequence : the journal of DNA sequencing and mapping 1998) 2 3 4
  3. ZKSCAN3 is a master transcriptional repressor of autophagy. (PMID: 23434374) Chauhan S … Boyd DD (Molecular cell 2013) 3 4
  4. Evidence of a role for the novel zinc-finger transcription factor ZKSCAN3 in modulating Cyclin D2 expression in multiple myeloma. (PMID: 21057542) Yang L … Orlowski RZ (Oncogene 2011) 3 4
  5. Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function. (PMID: 21946350) Soler Artigas M … Tobin MD (Nature genetics 2011) 3 41

Products for ZKSCAN3 Gene

  • Signalway Proteins for ZKSCAN3

Sources for ZKSCAN3 Gene