Details for: ZIC3

Gene ID: 7547

Symbol: ZIC3

Ensembl ID: ENSG00000156925

Description: Zic family member 3

Associated with

Cells (max top 100)

(Cell Significance Index and respective Thresholds are uniquely calculated using our advanced thresholding algorithms to reveal cell-specific gene markers)

  • Cell Name: embryonic stem cell (CL0002322)
    Fold Change: 16.5070
    Cell Significance Index: -6.8000
  • Cell Name: hematopoietic stem cell (CL0000037)
    Fold Change: 1.0261
    Cell Significance Index: 17.5400
  • Cell Name: retinal progenitor cell (CL0002672)
    Fold Change: 0.4067
    Cell Significance Index: 22.8200
  • Cell Name: photoreceptor cell (CL0000210)
    Fold Change: 0.0555
    Cell Significance Index: 0.7800
  • Cell Name: non-pigmented ciliary epithelial cell (CL0002304)
    Fold Change: 0.0270
    Cell Significance Index: 17.1400
  • Cell Name: fibroblast of dermis (CL0002551)
    Fold Change: 0.0258
    Cell Significance Index: 0.5400
  • Cell Name: radial glial cell (CL0000681)
    Fold Change: 0.0185
    Cell Significance Index: 0.1100
  • Cell Name: GABAergic interneuron (CL0011005)
    Fold Change: 0.0167
    Cell Significance Index: 11.5400
  • Cell Name: pigmented epithelial cell (CL0000529)
    Fold Change: 0.0123
    Cell Significance Index: 23.1100
  • Cell Name: CD14-low, CD16-positive monocyte (CL0002396)
    Fold Change: 0.0118
    Cell Significance Index: 0.2800
  • Cell Name: cerebellar granule cell (CL0001031)
    Fold Change: 0.0053
    Cell Significance Index: 0.0900
  • Cell Name: anterior lens cell (CL0002223)
    Fold Change: -0.0039
    Cell Significance Index: -7.2400
  • Cell Name: pancreatic A cell (CL0000171)
    Fold Change: -0.0066
    Cell Significance Index: -4.8700
  • Cell Name: glioblast (CL0000030)
    Fold Change: -0.0080
    Cell Significance Index: -0.0500
  • Cell Name: type B pancreatic cell (CL0000169)
    Fold Change: -0.0085
    Cell Significance Index: -4.8200
  • Cell Name: ciliary muscle cell (CL1000443)
    Fold Change: -0.0123
    Cell Significance Index: -5.5900
  • Cell Name: CD8-positive, alpha-beta memory T cell, CD45RO-positive (CL0001203)
    Fold Change: -0.0135
    Cell Significance Index: -0.1400
  • Cell Name: megakaryocyte-erythroid progenitor cell (CL0000050)
    Fold Change: -0.0175
    Cell Significance Index: -0.2400
  • Cell Name: dopaminergic neuron (CL0000700)
    Fold Change: -0.0177
    Cell Significance Index: -5.0800
  • Cell Name: megakaryocyte (CL0000556)
    Fold Change: -0.0247
    Cell Significance Index: -0.4000
  • Cell Name: L2/3-6 intratelencephalic projecting glutamatergic neuron (CL4023040)
    Fold Change: -0.0250
    Cell Significance Index: -5.0300
  • Cell Name: intermediate cell of urothelium (CL4030055)
    Fold Change: -0.0305
    Cell Significance Index: -5.4900
  • Cell Name: pigmented ciliary epithelial cell (CL0002303)
    Fold Change: -0.0360
    Cell Significance Index: -5.2300
  • Cell Name: smooth muscle cell of sphincter of pupil (CL0002243)
    Fold Change: -0.0367
    Cell Significance Index: -3.8200
  • Cell Name: pancreatic ductal cell (CL0002079)
    Fold Change: -0.0425
    Cell Significance Index: -4.8700
  • Cell Name: epithelial cell of stomach (CL0002178)
    Fold Change: -0.0428
    Cell Significance Index: -4.9900
  • Cell Name: obsolete epithelial cell of alveolus of lung (CL0010003)
    Fold Change: -0.0439
    Cell Significance Index: -1.1000
  • Cell Name: eye photoreceptor cell (CL0000287)
    Fold Change: -0.0460
    Cell Significance Index: -2.9000
  • Cell Name: skeletal muscle fiber (CL0008002)
    Fold Change: -0.0467
    Cell Significance Index: -1.2000
  • Cell Name: neuron associated cell (CL0000095)
    Fold Change: -0.0483
    Cell Significance Index: -1.9800
  • Cell Name: precursor B cell (CL0000817)
    Fold Change: -0.0510
    Cell Significance Index: -0.6600
  • Cell Name: helper T cell (CL0000912)
    Fold Change: -0.0545
    Cell Significance Index: -0.7800
  • Cell Name: medial ganglionic eminence derived interneuron (CL4023063)
    Fold Change: -0.0566
    Cell Significance Index: -0.8100
  • Cell Name: glycinergic neuron (CL1001509)
    Fold Change: -0.0615
    Cell Significance Index: -3.2300
  • Cell Name: tendon cell (CL0000388)
    Fold Change: -0.0662
    Cell Significance Index: -0.9000
  • Cell Name: neuroblast (sensu Vertebrata) (CL0000031)
    Fold Change: -0.0692
    Cell Significance Index: -0.4500
  • Cell Name: retinal astrocyte (CL4033015)
    Fold Change: -0.0695
    Cell Significance Index: -0.6800
  • Cell Name: Purkinje cell (CL0000121)
    Fold Change: -0.0740
    Cell Significance Index: -1.6200
  • Cell Name: hippocampal granule cell (CL0001033)
    Fold Change: -0.0788
    Cell Significance Index: -5.3000
  • Cell Name: forebrain neuroblast (CL1000042)
    Fold Change: -0.0947
    Cell Significance Index: -5.8200
  • Cell Name: connective tissue cell (CL0002320)
    Fold Change: -0.0954
    Cell Significance Index: -0.9200
  • Cell Name: nasal mucosa goblet cell (CL0002480)
    Fold Change: -0.0980
    Cell Significance Index: -1.0000
  • Cell Name: forebrain radial glial cell (CL0013000)
    Fold Change: -0.1018
    Cell Significance Index: -0.7400
  • Cell Name: primitive red blood cell (CL0002355)
    Fold Change: -0.1060
    Cell Significance Index: -1.2000
  • Cell Name: lung endothelial cell (CL1001567)
    Fold Change: -0.1073
    Cell Significance Index: -5.5900
  • Cell Name: skeletal muscle myoblast (CL0000515)
    Fold Change: -0.1085
    Cell Significance Index: -1.1800
  • Cell Name: Mueller cell (CL0000636)
    Fold Change: -0.1092
    Cell Significance Index: -0.8400
  • Cell Name: fast muscle cell (CL0000190)
    Fold Change: -0.1180
    Cell Significance Index: -1.5500
  • Cell Name: indirect pathway medium spiny neuron (CL4023029)
    Fold Change: -0.1230
    Cell Significance Index: -5.4400
  • Cell Name: lymphocyte (CL0000542)
    Fold Change: -0.1250
    Cell Significance Index: -1.7000
  • Cell Name: muscle cell (CL0000187)
    Fold Change: -0.1265
    Cell Significance Index: -1.2100
  • Cell Name: cerebral cortex GABAergic interneuron (CL0010011)
    Fold Change: -0.1313
    Cell Significance Index: -1.3200
  • Cell Name: transit amplifying cell (CL0009010)
    Fold Change: -0.1344
    Cell Significance Index: -1.2900
  • Cell Name: direct pathway medium spiny neuron (CL4023026)
    Fold Change: -0.1429
    Cell Significance Index: -5.4100
  • Cell Name: luminal adaptive secretory precursor cell of mammary gland (CL4033057)
    Fold Change: -0.1430
    Cell Significance Index: -6.7200
  • Cell Name: erythrocyte (CL0000232)
    Fold Change: -0.1437
    Cell Significance Index: -3.6600
  • Cell Name: L5 extratelencephalic projecting glutamatergic cortical neuron (CL4023041)
    Fold Change: -0.1516
    Cell Significance Index: -5.3100
  • Cell Name: L6b glutamatergic cortical neuron (CL4023038)
    Fold Change: -0.1546
    Cell Significance Index: -5.0600
  • Cell Name: secretory cell (CL0000151)
    Fold Change: -0.1601
    Cell Significance Index: -1.1100
  • Cell Name: adipocyte (CL0000136)
    Fold Change: -0.1620
    Cell Significance Index: -2.1600
  • Cell Name: Schwann cell precursor (CL0002375)
    Fold Change: -0.1637
    Cell Significance Index: -1.3000
  • Cell Name: corticothalamic-projecting glutamatergic cortical neuron (CL4023013)
    Fold Change: -0.1674
    Cell Significance Index: -5.3300
  • Cell Name: cerebral cortex endothelial cell (CL1001602)
    Fold Change: -0.1720
    Cell Significance Index: -3.5000
  • Cell Name: muscle fibroblast (CL1001609)
    Fold Change: -0.1812
    Cell Significance Index: -1.1100
  • Cell Name: cortical cell of adrenal gland (CL0002097)
    Fold Change: -0.1821
    Cell Significance Index: -4.8800
  • Cell Name: hippocampal pyramidal neuron (CL1001571)
    Fold Change: -0.1850
    Cell Significance Index: -5.2800
  • Cell Name: IgA plasma cell (CL0000987)
    Fold Change: -0.1862
    Cell Significance Index: -1.2400
  • Cell Name: CD4-positive, alpha-beta T cell (CL0000624)
    Fold Change: -0.1903
    Cell Significance Index: -1.7800
  • Cell Name: peridermal cell (CL0000078)
    Fold Change: -0.1940
    Cell Significance Index: -1.2100
  • Cell Name: kidney epithelial cell (CL0002518)
    Fold Change: -0.1956
    Cell Significance Index: -5.7600
  • Cell Name: granulosa cell (CL0000501)
    Fold Change: -0.1974
    Cell Significance Index: -5.1900
  • Cell Name: chondroblast (CL0000058)
    Fold Change: -0.2027
    Cell Significance Index: -1.1900
  • Cell Name: caudal ganglionic eminence derived cortical interneuron (CL4023064)
    Fold Change: -0.2041
    Cell Significance Index: -4.0700
  • Cell Name: placental villous trophoblast (CL2000060)
    Fold Change: -0.2049
    Cell Significance Index: -5.4700
  • Cell Name: neuroblast (sensu Nematoda and Protostomia) (CL0000338)
    Fold Change: -0.2112
    Cell Significance Index: -1.9200
  • Cell Name: neural cell (CL0002319)
    Fold Change: -0.2126
    Cell Significance Index: -2.4800
  • Cell Name: near-projecting glutamatergic cortical neuron (CL4023012)
    Fold Change: -0.2209
    Cell Significance Index: -5.5100
  • Cell Name: neural progenitor cell (CL0011020)
    Fold Change: -0.2224
    Cell Significance Index: -2.2000
  • Cell Name: leptomeningeal cell (CL0000708)
    Fold Change: -0.2253
    Cell Significance Index: -4.8200
  • Cell Name: lamp5 GABAergic cortical interneuron (CL4023011)
    Fold Change: -0.2342
    Cell Significance Index: -5.0600
  • Cell Name: ependymal cell (CL0000065)
    Fold Change: -0.2376
    Cell Significance Index: -2.8000
  • Cell Name: pvalb GABAergic cortical interneuron (CL4023018)
    Fold Change: -0.2398
    Cell Significance Index: -5.0900
  • Cell Name: prostate gland microvascular endothelial cell (CL2000059)
    Fold Change: -0.2417
    Cell Significance Index: -1.7400
  • Cell Name: cardiac muscle cell (CL0000746)
    Fold Change: -0.2466
    Cell Significance Index: -3.6400
  • Cell Name: fibroblast of mammary gland (CL0002555)
    Fold Change: -0.2489
    Cell Significance Index: -7.1400
  • Cell Name: cortical interneuron (CL0008031)
    Fold Change: -0.2502
    Cell Significance Index: -6.0000
  • Cell Name: sst GABAergic cortical interneuron (CL4023017)
    Fold Change: -0.2559
    Cell Significance Index: -5.0600
  • Cell Name: epithelial cell of urethra (CL1000296)
    Fold Change: -0.2607
    Cell Significance Index: -1.6100
  • Cell Name: neuron associated cell (sensu Vertebrata) (CL0000123)
    Fold Change: -0.2621
    Cell Significance Index: -2.9100
  • Cell Name: VIP GABAergic cortical interneuron (CL4023016)
    Fold Change: -0.2705
    Cell Significance Index: -5.4300
  • Cell Name: keratinocyte (CL0000312)
    Fold Change: -0.2735
    Cell Significance Index: -6.8300
  • Cell Name: CD14-positive monocyte (CL0001054)
    Fold Change: -0.2741
    Cell Significance Index: -5.3600
  • Cell Name: vascular leptomeningeal cell (CL4023051)
    Fold Change: -0.2754
    Cell Significance Index: -4.1200
  • Cell Name: mesenchymal cell (CL0008019)
    Fold Change: -0.2802
    Cell Significance Index: -4.6900
  • Cell Name: astrocyte of the cerebral cortex (CL0002605)
    Fold Change: -0.2846
    Cell Significance Index: -4.9200
  • Cell Name: osteoblast (CL0000062)
    Fold Change: -0.2886
    Cell Significance Index: -2.8000
  • Cell Name: cardiac endothelial cell (CL0010008)
    Fold Change: -0.2924
    Cell Significance Index: -4.2100
  • Cell Name: sncg GABAergic cortical interneuron (CL4023015)
    Fold Change: -0.2929
    Cell Significance Index: -5.7700
  • Cell Name: CD14-positive, CD16-negative classical monocyte (CL0002057)
    Fold Change: -0.2962
    Cell Significance Index: -5.4800
  • Cell Name: chondrocyte (CL0000138)
    Fold Change: -0.2993
    Cell Significance Index: -3.4500

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this specific cell.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Cell ID: Standard Cell Ontology term used for mapping and comparing cells across experiments. Ensures consistency in analyzing cellular functions across tissues.
Fold Change: Represents the ratio of the current Cell Significance Index to the Cell Significance Index Threshold, indicating how much the gene expression has changed compared to a baseline.
Cell Significance Index: Reflects how strongly a gene is expressed in this cell type. Calculated using techniques like effect size estimation and bootstrapping for reliability.

Other Information

**Key Characteristics** The ZIC3 gene encodes a zinc finger protein that contains a C2H2-type zinc finger domain, which is a common motif for DNA-binding proteins. The protein has a high degree of sequence similarity to other ZIC family members, suggesting that it may share similar functional properties. The gene is highly expressed in embryonic tissues, including the central nervous system, heart, and limbs, indicating its role in early developmental processes. ZIC3 is also expressed in adult tissues, including the nervous system, immune cells, and epithelial cells, suggesting its continued involvement in tissue homeostasis and maintenance. **Pathways and Functions** The ZIC3 gene is involved in multiple developmental pathways, including: 1. **Atrial cardiac muscle tissue development**: ZIC3 regulates the expression of genes involved in cardiac development, including those involved in atrial septation and cardiac looping. 2. **Axial mesoderm development**: ZIC3 plays a role in the specification of axial mesoderm, which gives rise to the anterior-posterior axis of the embryo. 3. **Central nervous system development**: ZIC3 regulates the expression of genes involved in neural patterning, cell differentiation, and axon guidance. 4. **Determination of left/right asymmetry**: ZIC3 is involved in the specification of left/right asymmetry in the nervous system, heart, and digestive tract. 5. **Neural plate development**: ZIC3 regulates the expression of genes involved in neural plate formation and patterning. The ZIC3 protein functions as a transcription factor, binding to specific DNA sequences to regulate the expression of target genes. It has been shown to activate the expression of genes involved in cell proliferation, differentiation, and survival. ZIC3 also interacts with other transcription factors and signaling molecules to regulate its activity. **Clinical Significance** Dysregulation of ZIC3 has been implicated in various diseases, including: 1. **Congenital heart defects**: Mutations in ZIC3 have been associated with congenital heart defects, including atrial septal defects and ventricular septal defects. 2. **Neurodevelopmental disorders**: ZIC3 has been linked to neurodevelopmental disorders, including autism spectrum disorder and schizophrenia. 3. **Cancer**: ZIC3 has been shown to be overexpressed in certain types of cancer, including lung and breast cancer. 4. **Immune system disorders**: ZIC3 has been implicated in immune system disorders, including autoimmune diseases and immunodeficiency syndromes. In summary, the ZIC3 gene plays a crucial role in various developmental processes, including embryonic patterning, organogenesis, and cell differentiation. Its dysregulation has been implicated in various diseases, highlighting the importance of ZIC3 in human health and disease.

Genular Protein ID: 1553711519

Symbol: ZIC3_HUMAN

Name: Zinc finger protein ZIC 3

UniProtKB Accession Codes:

O60481 B2CNW4 Q14DE5 Q5JY75

Database IDs:

AGR 1 AlphaFoldDB 1 Antibodypedia 1 Bgee 1 BioGRID 1 BioGRID-ORCS 1 BioMuta 1 CCDS 2 CTD 1 DNASU 1 DisGeNET 1 EMBL 5 Ensembl 2 EvolutionaryTrace 1 GO 41 Gene3D 1 GeneCards 1 GeneTree 1 GeneWiki 1 GenomeRNAi 1 HGNC 1 HOGENOM 1 HPA 1 InParanoid 1 IntAct 1 InterPro 4 KEGG 1 MANE-Select 1 MIM 6 MalaCards 1 MassIVE 1 NCBI Taxonomy 1 OMA 1 OpenTargets 1 Orphanet 2 OrthoDB 1 PANTHER 2 PDB 2 PDBsum 2 PRO 1 PROSITE 2 PathwayCommons 1 PaxDb 1 PeptideAtlas 1 Pfam 2 PharmGKB 1 Pharos 1 PhosphoSitePlus 1 PhylomeDB 1 Proteomes 1 ProteomicsDB 2 RNAct 1 Reactome 2 RefSeq 2 SIGNOR 1 SMART 1 SMR 1 STRING 1 SUPFAM 1 SignaLink 1 TreeFam 1 UCSC 1 VEuPathDB 1 eggNOG 1 iPTMnet 1 jPOST 1 neXtProt 1

Citations:

PubMed ID: 9354794

Title: X-linked situs abnormalities result from mutations in ZIC3.

PubMed ID: 9354794

DOI: 10.1038/ng1197-305

PubMed ID: 19266028

Title: Genome-wide analysis of histidine repeats reveals their role in the localization of human proteins to the nuclear speckles compartment.

PubMed ID: 19266028

DOI: 10.1371/journal.pgen.1000397

PubMed ID: 15772651

Title: The DNA sequence of the human X chromosome.

PubMed ID: 15772651

DOI: 10.1038/nature03440

PubMed ID: 15489334

Title: The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).

PubMed ID: 15489334

DOI: 10.1101/gr.2596504

PubMed ID: 17764085

Title: Characterization of the interactions of human ZIC3 mutants with GLI3.

PubMed ID: 17764085

DOI: 10.1002/humu.20606

PubMed ID: 21858219

Title: Identification of a novel ZIC3 isoform and mutation screening in patients with heterotaxy and congenital heart disease.

PubMed ID: 21858219

DOI: 10.1371/journal.pone.0023755

PubMed ID: 21406692

Title: System-wide temporal characterization of the proteome and phosphoproteome of human embryonic stem cell differentiation.

PubMed ID: 21406692

DOI: 10.1126/scisignal.2001570

PubMed ID: 28112733

Title: Site-specific mapping of the human SUMO proteome reveals co-modification with phosphorylation.

PubMed ID: 28112733

DOI: 10.1038/nsmb.3366

PubMed ID: 18716025

Title: Functional and structural basis of the nuclear localization signal in the ZIC3 zinc finger domain.

PubMed ID: 18716025

DOI: 10.1093/hmg/ddn239

PubMed ID: 14681828

Title: Identification and functional analysis of ZIC3 mutations in heterotaxy and related congenital heart defects.

PubMed ID: 14681828

DOI: 10.1086/380998

PubMed ID: 16959974

Title: The consensus coding sequences of human breast and colorectal cancers.

PubMed ID: 16959974

DOI: 10.1126/science.1133427

PubMed ID: 17295247

Title: Elucidation of penetrance variability of a ZIC3 mutation in a family with complex heart defects and functional analysis of ZIC3 mutations in the first zinc finger domain.

PubMed ID: 17295247

DOI: 10.1002/humu.20480

PubMed ID: 20452998

Title: Polyalanine expansion in the ZIC3 gene leading to X-linked heterotaxy with VACTERL association: a new polyalanine disorder?

PubMed ID: 20452998

DOI: 10.1136/jmg.2008.060913

PubMed ID: 24123890

Title: Genetic and functional analyses of ZIC3 variants in congenital heart disease.

PubMed ID: 24123890

DOI: 10.1002/humu.22457

Sequence Information:

  • Length: 467
  • Mass: 50569
  • Checksum: 3150CF13C0679568
  • Sequence:
    • MTMLLDGGPQ FPGLGVGSFG APRHHEMPNR EPAGMGLNPF GDSTHAAAAA AAAAAFKLSP 
AAAHDLSSGQ SSAFTPQGSG YANALGHHHH HHHHHHHTSQ VPSYGGAASA AFNSTREFLF 
RQRSSGLSEA ASGGGQHGLF AGSASSLHAP AGIPEPPSYL LFPGLHEQGA GHPSPTGHVD 
NNQVHLGLRG ELFGRADPYR PVASPRTDPY AAGAQFPNYS PMNMNMGVNV AAHHGPGAFF 
RYMRQPIKQE LSCKWIDEAQ LSRPKKSCDR TFSTMHELVT HVTMEHVGGP EQNNHVCYWE 
ECPREGKSFK AKYKLVNHIR VHTGEKPFPC PFPGCGKIFA RSENLKIHKR THTGEKPFKC 
EFEGCDRRFA NSSDRKKHMH VHTSDKPYIC KVCDKSYTHP SSLRKHMKVH ESQGSDSSPA 
ASSGYESSTP PAIASANSKD TTKTPSAVQT STSHNPGLPP NFNEWYV

Database document:

This is a preview of the gene's schema. Only a few entries are kept for 'singleCellExpressions,' 'mRNAExpressions,' and other large data arrays for visualization purposes. You can zoom in with the mouse wheel for a closer view, and the text will adjust automatically if necessary. For the full schema, download it here.