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Aliases for ZIC5 Gene

Aliases for ZIC5 Gene

  • Zic Family Member 5 2 3 5
  • Zic Family Member 5 (Odd-Paired Homolog, Drosophila) 2
  • Zinc Finger Protein Of The Cerebellum 5 4

External Ids for ZIC5 Gene

Previous GeneCards Identifiers for ZIC5 Gene

  • GC13M098977
  • GC13M095004
  • GC13M099454
  • GC13M098315
  • GC13M099415
  • GC13M100615
  • GC13M081209

Summaries for ZIC5 Gene

Entrez Gene Summary for ZIC5 Gene

  • This gene encodes a member of the ZIC family of C2H2-type zinc finger proteins. Members of this family are important during development, and have been associated X-linked visceral heterotaxy and holoprosencephaly type 5. This gene is closely linked to a gene encoding zinc finger protein of the cerebellum 2, a related family member on chromosome 13. [provided by RefSeq, Jul 2008]

GeneCards Summary for ZIC5 Gene

ZIC5 (Zic Family Member 5) is a Protein Coding gene. Diseases associated with ZIC5 include Visceral Heterotaxy. Among its related pathways are Neural Crest Differentiation. GO annotations related to this gene include transcription factor activity, sequence-specific DNA binding. An important paralog of this gene is ZIC2.

UniProtKB/Swiss-Prot for ZIC5 Gene

  • Essential for neural crest development, converting cells from an epidermal fate to a neural crest cell fate. Binds to DNA (By similarity).

No data available for Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for ZIC5 Gene

Genomics for ZIC5 Gene

Regulatory Elements for ZIC5 Gene

Enhancers for ZIC5 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
GH13F099955 1.5 FANTOM5 Ensembl ENCODE 42 +14.8 14758 4.3 CBX3 ETS1 RARA CREM MIXL1 THAP11 ZNF202 HMG20B ZNF680 SP5 ZIC5 ZIC2 ENSG00000224356 PCCA LOC101927437 PIR56949 GC13M099970
GH13F099978 1.6 FANTOM5 Ensembl ENCODE 29.8 -11.6 -11593 10.8 SIN3A FEZF1 GLI4 BRCA1 ZNF2 ZNF121 GLIS2 FOS ZNF202 ZNF263 LINC00554 ZIC5 LINC01039 CFL1P8 ARF4P3 RN7SKP9 LINC00411 TM9SF2 HMGB3P4 ZIC2
GH13F099990 1.2 FANTOM5 ENCODE 32 -18.6 -18602 0.8 ZSCAN5A SUZ12 KLF17 BCL11B ZNF2 RARA ZNF324 ZFHX2 GLIS2 PATZ1 ZIC5 ZIC2 GC13P099996
GH13F099655 1.5 FANTOM5 Ensembl ENCODE 24.9 +314.0 314027 5.3 PKNOX1 ATF1 WRNIP1 SIN3A ZNF2 RAD21 ETS1 RARA RFX5 YY1 ZIC5 CLYBL ZIC2 LINC00449 MIR4306 GC13P099679
GH13F099995 0.6 ENCODE 13.5 -24.0 -24008 0.2 ZNF263 RING1 CBX8 SMARCA4 RNF2 CBX2 BMI1 EZH2 ZIC5 GC13P099996 ZIC2
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around ZIC5 on UCSC Golden Path with GeneCards custom track

Promoters for ZIC5 Gene
Ensembl Regulatory Elements (ENSRs) TSS Distance (bp) Size (bp) Binding Sites for Transcription Factors within promoters
ENSR00001786738 1224 2201 ATF1 PKNOX1 CREB3L1 KLF17 GLI4 ZNF2 ZEB1 SCRT2 CREM EGR2

Genomic Location for ZIC5 Gene

99,962,964 bp from pter
99,971,924 bp from pter
8,961 bases
Minus strand

Genomic View for ZIC5 Gene

Genes around ZIC5 on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
ZIC5 Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for ZIC5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for ZIC5 Gene

Proteins for ZIC5 Gene

  • Protein details for ZIC5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Recommended name:
    Zinc finger protein ZIC 5
    Protein Accession:
    Secondary Accessions:
    • Q5VYB0

    Protein attributes for ZIC5 Gene

    663 amino acids
    Molecular mass:
    68448 Da
    Quaternary structure:
    No Data Available
    • Sequence=AAK55418.1; Type=Erroneous initiation; Note=Translation N-terminally extended.; Evidence={ECO:0000305};

neXtProt entry for ZIC5 Gene

Post-translational modifications for ZIC5 Gene

  • Modification sites at PhosphoSitePlus
  • Modification sites at neXtProt

Other Protein References for ZIC5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for ZIC5 Gene

Domains & Families for ZIC5 Gene

Gene Families for ZIC5 Gene

Protein Domains for ZIC5 Gene

Suggested Antigen Peptide Sequences for ZIC5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry



  • Belongs to the GLI C2H2-type zinc-finger protein family.
  • Contains 4 C2H2-type zinc fingers.
  • Belongs to the GLI C2H2-type zinc-finger protein family.
  • Contains 4 C2H2-type zinc fingers.
genes like me logo Genes that share domains with ZIC5: view

Function for ZIC5 Gene

Molecular function for ZIC5 Gene

UniProtKB/Swiss-Prot Function:
Essential for neural crest development, converting cells from an epidermal fate to a neural crest cell fate. Binds to DNA (By similarity).

Gene Ontology (GO) - Molecular Function for ZIC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0046872 metal ion binding IEA --
genes like me logo Genes that share ontologies with ZIC5: view
genes like me logo Genes that share phenotypes with ZIC5: view

Animal Models for ZIC5 Gene

MGI Knock Outs for ZIC5:

Animal Model Products

miRNA for ZIC5 Gene

miRTarBase miRNAs that target ZIC5

Inhibitory RNA Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , Transcription Factor Targets and HOMER Transcription for ZIC5 Gene

Localization for ZIC5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for ZIC5 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 ZIC5 gene
Compartment Confidence
nucleus 5

Gene Ontology (GO) - Cellular Components for ZIC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005634 nucleus IEA --
genes like me logo Genes that share ontologies with ZIC5: view

Pathways & Interactions for ZIC5 Gene

SuperPathway Contained pathways
1 Neural Crest Differentiation
genes like me logo Genes that share pathways with ZIC5: view

Pathways by source for ZIC5 Gene

1 BioSystems pathway for ZIC5 Gene

Gene Ontology (GO) - Biological Process for ZIC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007275 multicellular organism development IEA --
GO:0007399 nervous system development IEA --
GO:0030154 cell differentiation IEA --
genes like me logo Genes that share ontologies with ZIC5: view

No data available for SIGNOR curated interactions for ZIC5 Gene

Transcripts for ZIC5 Gene

mRNA/cDNA for ZIC5 Gene

(1) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(6) Selected AceView cDNA sequences:
(1) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for ZIC5 Gene

Zic family member 5:
Representative Sequences:

Inhibitory RNA Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for ZIC5 Gene

No ASD Table

Relevant External Links for ZIC5 Gene

GeneLoc Exon Structure for
ECgene alternative splicing isoforms for

Expression for ZIC5 Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and SAGE for ZIC5 Gene

mRNA differential expression in normal tissues according to GTEx for ZIC5 Gene

This gene is overexpressed in Brain - Cerebellum (x21.9) and Brain - Cerebellar Hemisphere (x18.7).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB, PaxDb, and MOPED for ZIC5 Gene

Protein tissue co-expression partners for ZIC5 Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of ZIC5 Gene:


SOURCE GeneReport for Unigene cluster for ZIC5 Gene:

genes like me logo Genes that share expression patterns with ZIC5: view

Primer Products

No data available for Protein differential expression in normal tissues and mRNA Expression by UniProt/SwissProt for ZIC5 Gene

Orthologs for ZIC5 Gene

This gene was present in the common ancestor of animals.

Orthologs for ZIC5 Gene

Organism Taxonomy Gene Similarity Type Details
(Pan troglodytes)
Mammalia ZIC5 35
  • 100 (a)
(Canis familiaris)
Mammalia ZIC5 34 35
  • 93.55 (n)
(Rattus norvegicus)
Mammalia Zic5 34
  • 92.7 (n)
(Ornithorhynchus anatinus)
Mammalia ZIC5 35
  • 91 (a)
(Mus musculus)
Mammalia Zic5 34 16 35
  • 89.96 (n)
(Bos Taurus)
Mammalia ZIC5 35
  • 89 (a)
(Monodelphis domestica)
Mammalia ZIC5 35
  • 76 (a)
(Anolis carolinensis)
Reptilia ZIC5 35
  • 86 (a)
African clawed frog
(Xenopus laevis)
Amphibia zic5-A 34
(Danio rerio)
Actinopterygii zic5 35
  • 67 (a)
Dr.27091 34
fruit fly
(Drosophila melanogaster)
Insecta opa 36 35
  • 62 (a)
lmd 36
  • 54 (a)
sea squirt
(Ciona savignyi)
Ascidiacea CSA.4381 35
  • 33 (a)
Species where no ortholog for ZIC5 was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • 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)
  • 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 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)

Evolution for ZIC5 Gene

Gene Tree for ZIC5 (if available)
Gene Tree for ZIC5 (if available)

Paralogs for ZIC5 Gene

(7) SIMAP similar genes for ZIC5 Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with ZIC5: view

Variants for ZIC5 Gene

Sequence variations from dbSNP and Humsavar for ZIC5 Gene

SNP ID Clin Chr 13 pos Sequence Context AA Info Type
rs772098205 Benign 99,970,416(+) GTGGC(-/GGC)GGCGG cds-indel
rs879255428 Benign 99,970,414(-) CCGCC(-/GCCGCCGCCGCCGCCGCC)ACCGC cds-indel
rs111995265 -- 99,963,835(+) TTATT(A/G)ACAAT utr-variant-3-prime
rs112226785 -- 99,968,428(+) GGGTC(C/T)CCCGC intron-variant
rs112524814 -- 99,969,942(+) ATAGA(A/G)AAAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for ZIC5 Gene

Variant ID Type Subtype PubMed ID
nsv832697 CNV loss 17160897
nsv826766 CNV gain 20364138
nsv826757 CNV loss 20364138
nsv562954 CNV loss 21841781
nsv562953 CNV loss 21841781
nsv562952 CNV loss 21841781
nsv510622 CNV deletion 20534489
nsv456093 CNV loss 19166990
nsv1121866 CNV deletion 24896259
nsv1118272 CNV deletion 24896259
nsv1069768 CNV deletion 25765185
esv2747875 CNV deletion 23290073
dgv347n67 CNV gain 20364138
dgv346n67 CNV gain 20364138
dgv345n67 CNV gain 20364138

Variation tolerance for ZIC5 Gene

Gene Damage Index Score: 3.67; 57.01% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for ZIC5 Gene

SNPedia medical, phenotypic, and genealogical associations of SNPs for

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for ZIC5 Gene

Disorders for ZIC5 Gene

MalaCards: The human disease database

(1) MalaCards diseases for ZIC5 Gene - From: GeneCards

Disorder Aliases PubMed IDs
visceral heterotaxy
  • heterotaxia
- elite association - COSMIC cancer census association via MalaCards
Search ZIC5 in MalaCards View complete list of genes associated with diseases

Relevant External Links for ZIC5

Genetic Association Database (GAD)
Atlas of Genetics and Cytogenetics in Oncology and Haematology:
genes like me logo Genes that share disorders with ZIC5: view

No data available for UniProtKB/Swiss-Prot and Genatlas for ZIC5 Gene

Publications for ZIC5 Gene

  1. The variant Polycomb Repressor Complex 1 component PCGF1 interacts with a pluripotency sub-network that includes DPPA4, a regulator of embryogenesis. (PMID: 26687479) Oliviero G. … Cagney G. (Sci. Rep. 2015) 3 64
  2. Genome-wide meta-analysis of myopia and hyperopia provides evidence for replication of 11 loci. (PMID: 25233373) Simpson C.L. … Stambolian D. (PLoS ONE 2014) 3 64
  3. System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation. (PMID: 21406692) Rigbolt K.T. … Blagoev B. (Sci. Signal. 2011) 4 64
  4. Expression of ZIC family genes in meningiomas and other brain tumors. (PMID: 20199689) Aruga J. … Yokota N. (BMC Cancer 2010) 3 64
  5. The SH3 domain of postsynaptic density 95 mediates inflammatory pain through phosphatidylinositol-3-kinase recruitment. (PMID: 20467438) Arbuckle M.I. … Grant S.G. (EMBO Rep. 2010) 3 64

Products for ZIC5 Gene

Sources for ZIC5 Gene

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