Zic3 zinc finger protein of the cerebellum 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Zic3provided by MGI
Official Full Name: zinc finger protein of the cerebellum 3provided by MGI
Primary source: MGI:MGI:106676
See related: Ensembl:ENSMUSG00000067860 AllianceGenome:MGI:106676
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: Bn; Ka
Summary: Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in determination of left/right asymmetry in nervous system and positive regulation of transcription by RNA polymerase II. Acts upstream of or within anterior/posterior pattern specification and heart looping. Located in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; egg cylinder; embryo ectoderm; embryo mesenchyme; and visual system. Used to study Goldenhar syndrome and visceral heterotaxy. Human ortholog(s) of this gene implicated in X-linked VACTERL association; situs inversus; and visceral heterotaxy. Orthologous to human ZIC3 (Zic family member 3). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in CNS E11.5 (RPKM 5.2), whole brain E14.5 (RPKM 4.7) and 7 other tissues See more
Orthologs: human all
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Genomic context

Location:: X A6; X 32.56 cM

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	X	NC_000086.8 (57075988..57081990)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	X	NC_000086.7 (58030628..58036630)

Chromosome X - NC_000086.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Mouse ENCODE transcriptome data
Description: RNA profiling data sets generated by the Mouse ENCODE project.
BioProject: PRJNA66167
Publication: PMID 25409824
Analysis date: n/a

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Zic family member 3 attenuates oxidative stress-induced vascular smooth muscle cell apoptosis in patients with chronic kidney disease.
Title: Zic family member 3 attenuates oxidative stress-induced vascular smooth muscle cell apoptosis in patients with chronic kidney disease.
Loss of Zic3 impairs planar cell polarity leading to abnormal left-right signaling, heart defects and neural tube defects.
Title: Loss of Zic3 impairs planar cell polarity leading to abnormal left-right signaling, heart defects and neural tube defects.
SUMOylation Potentiates ZIC Protein Activity to Influence Murine Neural Crest Cell Specification.
Title: SUMOylation Potentiates ZIC Protein Activity to Influence Murine Neural Crest Cell Specification.
ZIC3 acts upstream of a set of pro-differentiation transcriptional regulators in embryonic stem cells. Among its targets are genes encoding a number of transcription factors including GRHL2.
Title: ZIC3 Controls the Transition from Naive to Primed Pluripotency.
This study characterized cis-regulatory elements required for Zic3 expression.
Title: An Evolutionarily Conserved Mesodermal Enhancer in Vertebrate Zic3.
When transduced with Oct4, Sox2, and Klf4 (OSK) into murine fibroblasts, Zic3 and Esrrb synergistically enhance the reprogramming efficiency by regulating cellular metabolic pathways.
Title: Hybrid Cellular Metabolism Coordinated by Zic3 and Esrrb Synergistically Enhances Induction of Naive Pluripotency.
Targeted Resequencing of 29 Candidate Genes and Mouse Expression Studies Implicate ZIC3 and FOXF1 in Human VATER/VACTERL Association
Title: Targeted Resequencing of 29 Candidate Genes and Mouse Expression Studies Implicate ZIC3 and FOXF1 in Human VATER/VACTERL Association.
The primary effect of Zic3 in heart development occurs during left-right patterning.
Title: Heterotaxy-spectrum heart defects in Zic3 hypomorphic mice.
Zic3 is required in the migrating primitive streak for node morphogenesis and left-right patterning
Title: Zic3 is required in the migrating primitive streak for node morphogenesis and left-right patterning.
Heterotaxy in patients with premature termination codon-containing ZIC3 transcripts probably arises due to loss of ZIC3 function alone.
Title: A murine Zic3 transcript with a premature termination codon evades nonsense-mediated decay during axis formation.

Submit: New GeneRIF Correction See all GeneRIFs (23)

Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Spontaneous (2) 1 citation
Targeted (5) 1 citation
Endonuclease-mediated (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

NoName (e-PCR)
- UniSTS:548441

Zic3 (e-PCR), detects polymorphism
- UniSTS:144842

RH130454 (e-PCR)
- UniSTS:213738

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	IDA Inferred from Direct Assay more info	PubMed
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding	IDA Inferred from Direct Assay more info	PubMed
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info
enables transcription coactivator activity	IMP Inferred from Mutant Phenotype more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within anterior/posterior pattern specification	IGI Inferred from Genetic Interaction more info	PubMed
involved_in atrial cardiac muscle tissue development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in axial mesoderm development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cell cycle	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in central nervous system segmentation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in cranial skeletal system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in determination of digestive tract left/right asymmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of left/right asymmetry in nervous system	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within determination of left/right symmetry	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within determination of left/right symmetry	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in determination of left/right symmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of liver left/right asymmetry	ISO Inferred from Sequence Orthology more info
involved_in determination of pancreatic left/right asymmetry	ISO Inferred from Sequence Orthology more info
involved_in embryonic pattern specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in face development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in forebrain development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in gastrulation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in gene expression	IGI Inferred from Genetic Interaction more info	PubMed
involved_in gene expression	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in germ-line stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heart development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within heart looping	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within heart looping	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in heart looping	ISO Inferred from Sequence Orthology more info
involved_in hippocampus development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in left/right axis specification	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in left/right pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in limb morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
involved_in lung development	ISO Inferred from Sequence Orthology more info
involved_in mRNA transcription by RNA polymerase II	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in maintenance of cell number	IGI Inferred from Genetic Interaction more info	PubMed
involved_in mesoderm development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within multicellular organism development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within nervous system development	IEA Inferred from Electronic Annotation more info
involved_in neural plate development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in neuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in olfactory bulb development	IDA Inferred from Direct Assay more info	PubMed
involved_in olfactory bulb development	IGI Inferred from Genetic Interaction more info	PubMed
involved_in outer ear morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in paraxial mesoderm development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within pattern specification process	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	IDA Inferred from Direct Assay more info	PubMed
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in primitive streak formation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of DNA-binding transcription factor activity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in skeletal system development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in smoothened signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
involved_in stem cell differentiation	IDA Inferred from Direct Assay more info	PubMed
involved_in stem cell population maintenance	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in nucleoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: zinc finger protein ZIC 3

Names: Zic family member 3 (odd-paired homolog, Drosophila)

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_009575.2 → NP_033601.2 zinc finger protein ZIC 3

See identical proteins and their annotated locations for NP_033601.2

Status: VALIDATED

Source sequence(s)

AK134355, AL954389

Consensus CDS

CCDS30155.1

UniProtKB/Swiss-Prot

A2AWK3, Q3UYV1, Q62521, Q8BSB3

Related

ENSMUSP00000085999.5, ENSMUST00000088627.11

Conserved Domains (2) summary

COG5189
Location:323 → 407

SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]

sd00017
Location:301 → 321

ZF_C2H2; C2H2 Zn finger [structural motif]