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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 47 Homolog 3 4
  • ZSCAN13 3 4
  • Zfp-47 3 4
  • ZNF306 3 4
  • ZNF309 3 4
  • Zfp47 3 4
  • ZF47 3 4
  • Zinc Finger Protein With KRAB And SCAN Domains 3 3
  • Zinc Finger Protein Zfp47 3
  • DJ874C20.1. 3
  • DJ874C20.1 3
  • ZSCAN35 3
  • ZFP306 3

External Ids for ZKSCAN3 Gene

Previous HGNC Symbols for ZKSCAN3 Gene

  • ZNF306
  • ZNF309

Previous GeneCards Identifiers for ZKSCAN3 Gene

  • GC06P028426
  • 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 Multiple Myeloma. Among its related pathways are Gene Expression. 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 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 migation in various tumors and myelomas.

No data available for Entrez Gene Summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZKSCAN3 Gene

Genomics for ZKSCAN3 Gene

Regulatory Elements for ZKSCAN3 Gene

Enhancers for ZKSCAN3 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
GH06F027862 1 Ensembl ENCODE 104.2 -481.2 -481246 12.7 MLX CREB3L1 ZFP64 FEZF1 DMAP1 YBX1 YY1 SLC30A9 ZNF143 ZNF263 ZKSCAN8 ZKSCAN3 ZSCAN9 GUSBP2 ZSCAN26 ZKSCAN4 ZSCAN23 ZNF391 ZNF603P PGBD1
GH06F027495 0.4 ENCODE 79 -854.2 -854180 1.2 PKNOX1 ARNT CREB3L1 ARID4B SIN3A FEZF1 ZNF2 ZNF302 ZNF143 FOS ZKSCAN8 ZKSCAN3 ABT1 ZSCAN9 ZKSCAN4 HMGN4 ZNF391 GUSBP2 ZNF322 ZNF204P
GH06F028349 0.2 ENCODE 65.4 +0.9 902 3.0 HDGF ARNT CREB3L1 ARID4B SIN3A FEZF1 DMAP1 YBX1 ZNF2 YY1 ZKSCAN3 ZKSCAN8 ZKSCAN4 ZSCAN23 ZSCAN9 ZNF311 ZNF391 ZNF192P1 ZSCAN31 ZNF603P
GH06F028211 1.2 Ensembl ENCODE 63.5 -137.4 -137379 2.2 HDGF PKNOX1 ARNT CREB3L1 ARID4B SIN3A FEZF1 ZNF2 SLC30A9 ZNF143 ZKSCAN8 ZKSCAN3 ZNF603P ZKSCAN4 ZSCAN9 ZSCAN31 NKAPL ZNF311 ZSCAN23 PGBD1
GH06F027374 0.2 ENCODE 55.8 -974.7 -974685 2.0 ATF1 PKNOX1 CREB3L1 ARID4B ETS1 ZNF143 SP3 YY2 REST ZNF623 ZKSCAN8 ZKSCAN3 ZNF391 ABT1 ZSCAN9 GUSBP2 ZKSCAN4 HMGN4 ZNF322 PGBD1
- Elite enhancer/Elite enhancer-gene association Download Table
Download GeneHancer data dump

Enhancers around ZKSCAN3 on UCSC Golden Path with GeneCards custom track

Promoters for ZKSCAN3 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001879526 288 2000 HDGF ARNT CREB3L1 ARID4B SIN3A FEZF1 DMAP1 ZNF2 YY1 SLC30A9

Genomic Location for ZKSCAN3 Gene

Chromosome:
6
Start:
28,349,913 bp from pter
End:
28,369,177 bp from pter
Size:
19,265 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

Suggested Antigen Peptide Sequences for ZKSCAN3 Gene

Graphical View of Domain Structure for InterPro Entry

Q9BRR0

UniProtKB/Swiss-Prot:

ZKSC3_HUMAN :
  • Contains 1 KRAB domain.
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
  • Contains 7 C2H2-type zinc fingers.
Domain:
  • Contains 1 KRAB domain.
  • Contains 1 SCAN box domain.
Family:
  • Belongs to the krueppel C2H2-type zinc-finger protein family.
Similarity:
  • Contains 7 C2H2-type zinc fingers.
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 migation in various tumors and myelomas.
UniProtKB/Swiss-Prot Induction:
Overexpressed in various tumors, such as multiple myeloma, colorectal and prostate cancers (at protein level).

Gene Ontology (GO) - Molecular Function for ZKSCAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding IDA 18940803
GO:0001078 transcriptional repressor activity, RNA polymerase II core promoter proximal region sequence-specific binding 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

Inhibitory RNA Products

Flow Cytometry Products

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
Jensen Localization Image for ZKSCAN3 Gene COMPARTMENTS Subcellular localization image for ZKSCAN3 gene
Compartment Confidence
nucleus 5
cytosol 2
lysosome 1
vacuole 1

Gene Ontology (GO) - Cellular Components for ZKSCAN3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005622 intracellular IEA --
GO:0005634 nucleus IEA,IDA 18940803
GO:0005737 cytoplasm IEA,IDA 23434374
genes like me logo Genes that share ontologies with ZKSCAN3: view

Pathways & Interactions for ZKSCAN3 Gene

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 from RNA polymerase II promoter IDA 18940803
GO:0006351 transcription, DNA-templated IEA --
GO:0006355 regulation of transcription, DNA-templated IEA --
GO:0006914 autophagy IEA --
GO:0007040 lysosome organization IMP 23434374
genes like me logo Genes that share ontologies with ZKSCAN3: view

No data available for SIGNOR curated interactions for ZKSCAN3 Gene

Transcripts for ZKSCAN3 Gene

Unigene Clusters for ZKSCAN3 Gene

Zinc finger with KRAB and SCAN domains 3:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

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

No ASD Table

Relevant External Links for ZKSCAN3 Gene

GeneLoc Exon Structure for
ZKSCAN3
ECgene alternative splicing isoforms 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, PaxDb, MaxQB, and MOPED for ZKSCAN3 Gene



Protein tissue co-expression partners for ZKSCAN3 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZKSCAN3 Gene:

ZKSCAN3

SOURCE GeneReport for Unigene cluster for ZKSCAN3 Gene:

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

Primer Products

No data available for mRNA expression in embryonic tissues and stem cells from LifeMap Discovery , mRNA differential expression in normal tissues and mRNA Expression by UniProt/SwissProt 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 34 35
  • 99.26 (n)
rat
(Rattus norvegicus)
Mammalia Zkscan3 34
  • 80.01 (n)
mouse
(Mus musculus)
Mammalia Zkscan3 34 16 35
  • 79.8 (n)
cow
(Bos Taurus)
Mammalia -- 35
  • 75 (a)
OneToMany
dog
(Canis familiaris)
Mammalia -- 35
  • 72 (a)
OneToMany
Species where no ortholog for ZKSCAN3 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)
  • 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 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 ZKSCAN3 Gene

ENSEMBL:
Gene Tree for ZKSCAN3 (if available)
TreeFam:
Gene Tree for ZKSCAN3 (if available)

Paralogs for ZKSCAN3 Gene

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

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

Variants for ZKSCAN3 Gene

Sequence variations from dbSNP and Humsavar for ZKSCAN3 Gene

SNP ID Clin Chr 06 pos Sequence Context AA Info Type
rs1054372 -- 28,368,965(+) GCATT(G/T)TGATA utr-variant-3-prime
rs10549833 -- 28,368,618(+) CAAAC(-/TT)TTGTG utr-variant-3-prime
rs10599228 -- 28,349,199(+) ATATA(-/TA)GGTGT intron-variant, upstream-variant-2KB
rs111403132 -- 28,348,924(+) TGTCT(-/CA)TATAC intron-variant, upstream-variant-2KB
rs111472689 -- 28,366,204(+) AATGC(A/G)TGTGG reference, synonymous-codon

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)

Relevant External Links 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

(1) MalaCards diseases for ZKSCAN3 Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
multiple myeloma
  • myeloma, multiple amyloidosis, systemic, included
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for ZKSCAN3

Genetic Association Database (GAD)
ZKSCAN3
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
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. (Int. J. Biochem. Cell Biol. 2012) 2 3 4 64
  2. Computer sequence analysis of human highly conserved zinc finger modules. (PMID: 10520746) Petroni D. … Comi P. (DNA Seq. 1998) 2 3 4 64
  3. ZKSCAN3 is a master transcriptional repressor of autophagy. (PMID: 23434374) Chauhan S. … Boyd D.D. (Mol. Cell 2013) 3 4 64
  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 R.Z. (Oncogene 2011) 3 4 64
  5. Genome-wide association and large-scale follow up identifies 16 new loci influencing lung function. (PMID: 21946350) Soler Artigas M. … Tobin M.D. (Nat. Genet. 2011) 3 46 64

Products for ZKSCAN3 Gene

Sources for ZKSCAN3 Gene

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