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Zic1 zinc finger protein of the cerebellum 1 [ Mus musculus (house mouse) ]

Gene ID: 22771, updated on 21-Apr-2024

Summary

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Official Symbol
Zic1provided by MGI
Official Full Name
zinc finger protein of the cerebellum 1provided by MGI
Primary source
MGI:MGI:106683
See related
Ensembl:ENSMUSG00000032368 AllianceGenome:MGI:106683
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
ZIC; ZNF201
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 several processes, including central nervous system development; positive regulation of protein import into nucleus; and regulation of smoothened signaling pathway. Acts upstream of or within adult walking behavior and central nervous system development. Located in cytoplasm and nucleus. Is expressed in several structures, including central nervous system; embryo mesenchyme; future brain; metanephros; and visual system. Used to study Dandy-Walker syndrome and Joubert syndrome. Human ortholog(s) of this gene implicated in Dandy-Walker syndrome and craniosynostosis. Orthologous to human ZIC1 (Zic family member 1). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in cerebellum adult (RPKM 92.7), whole brain E14.5 (RPKM 45.5) and 4 other tissues See more
Orthologs
human all
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Genomic context

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Location:
9 E3.2; 9 48.26 cM
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCm39 (GCF_000001635.27) 9 NC_000075.7 (91240111..91250136, complement)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 9 NC_000075.6 (91358058..91365768, complement)

Chromosome 9 - NC_000075.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA A730094K22 gene Neighboring gene methionyl aminopeptidase 1 pseudogene Neighboring gene predicted gene, 40546 Neighboring gene predicted gene, 40545 Neighboring gene zinc finger protein of the cerebellum 4 Neighboring gene predicted gene 29478 Neighboring gene predicted gene, 39400

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Zic1 mRNA is transiently upregulated in subcutaneous fat of acutely cold-exposed mice. Perugini J, et al. J Cell Physiol, 2019 Mar. PMID 30343504
  2. Zic1 transcription factor in bone: neural developmental protein regulates mechanotransduction in osteocytes. Kalogeropoulos M, et al. FASEB J, 2010 Aug. PMID 20354137
  3. Zic1 levels regulate mossy fiber neuron position and axon laterality choice in the ventral brain stem. Dipietrantonio HJ, et al. Neuroscience, 2009 Sep 1. PMID 19303920, Free PMC Article
  4. Gene regulatory networks in neural cell fate acquisition from genome-wide chromatin association of Geminin and Zic1. Sankar S, et al. Sci Rep, 2016 Nov 24. PMID 27881878, Free PMC Article
  5. A Brn2-Zic1 axis specifies the neuronal fate of retinoic-acid-treated embryonic stem cells. Urban S, et al. J Cell Sci, 2015 Jul 1. PMID 25991548

See all (148) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. In an ongoing expression screen, this study identified that Tfap2b, Casq2, Penk, Zic1, and Zic3 are expressed in unique cell types in and around the developing eye.
    Title: Localization of Tfap2β, Casq2, Penk, Zic1, and Zic3 Expression in the Developing Retina, Muscle, and Sclera of the Embryonic Mouse Eye.
  2. Documented a significant increase in Zic1 mRNA in inguinal subcutaneous fat from acutely cold-exposed mice, which was paralleled by an increase in UCP1-positive adipocytes and in parenchymal noradrenergic innervation. This transient, depot-specific molecular signature was associated not to Zic1 promoter demethylation, but to chromatin remodeling through an H3K9me3 histone modification.
    Title: Zic1 mRNA is transiently upregulated in subcutaneous fat of acutely cold-exposed mice.
  3. Geminin and Zic1 could cooperatively activate the expression of several shared targets encoding transcription factors that control neurogenesis, neural plate patterning, and neuronal differentiation.
    Title: Gene regulatory networks in neural cell fate acquisition from genome-wide chromatin association of Geminin and Zic1.
  4. Zic1 and Zic2 proteins are essential to control the balance between two defined neuron types in the postnatal forebrain.
    Title: Zic-Proteins Are Repressors of Dopaminergic Forebrain Fate in Mice and C. elegans.
  5. Brn2-Zic1 axis is essential to specify neural fate in retinoic-acid-treated embryonic stem cells.
    Title: A Brn2-Zic1 axis specifies the neuronal fate of retinoic-acid-treated embryonic stem cells.
  6. Zic1 and Zic2 are required for coordinating mature neuronal gene expression patterns.
    Title: Regulation of chromatin accessibility and Zic binding at enhancers in the developing cerebellum.
  7. Association with DNA-bound Pax3 strengthens the ability of both Zic1 and Gli2 to transactivate Myf5 in the epaxial somite.
    Title: Pax3 synergizes with Gli2 and Zic1 in transactivating the Myf5 epaxial somite enhancer.
  8. Zic1 and Zic4 have both Shh-dependent and -independent roles during cerebellar development and multiple developmental disruptions underlie Zic1/4-related Dandy-walker malformation.
    Title: Multiple developmental programs are altered by loss of Zic1 and Zic4 to cause Dandy-Walker malformation cerebellar pathogenesis.
  9. Myf5 activation in newly forming somites is delayed in Zic2 mutant embryos until the time of Zic1 activation, and both Zic2 and Myf5 require noggin for their activation
    Title: A role for Zic1 and Zic2 in Myf5 regulation and somite myogenesis.
  10. Zic1, a neural developmental transcription factor, plays an important role in shear flow mechanotransduction in osteocytes.
    Title: Zic1 transcription factor in bone: neural developmental protein regulates mechanotransduction in osteocytes.
Submit: New GeneRIF Correction See all GeneRIFs (13)

Variation

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Alleles

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

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

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 factor activity IDA
Inferred from Direct Assay
more info
 PubMed 
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 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 double-stranded DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within adult walking behavior IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in brain development IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in brain development ISO
Inferred from Sequence Orthology
more info
  
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
  
acts_upstream_of_or_within central nervous system development IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within central nervous system development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in forebrain development IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in gene expression IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in hippocampus development IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in maintenance of cell number IGI
Inferred from Genetic Interaction
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 olfactory bulb development IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in pattern specification process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in positive regulation of protein import into nucleus 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 regulation of smoothened signaling pathway IPI
Inferred from Physical Interaction
more info
 PubMed 
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in skeletal system development NAS
Non-traceable Author Statement
more info
 PubMed 
involved_in spinal cord development 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 
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
zinc finger protein ZIC 1
Names
Zic family member 1 (odd-paired homolog, Drosophila)
odd-paired homolog

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)

  1. NM_001376941.1 → NP_001363870.1  zinc finger protein ZIC 1

    Status: VALIDATED

    Description
    Transcript Variant: Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AC116582, AK141431, BC060247, CD741655
    UniProtKB/Swiss-Prot
    P46684, Q6PAK5, Q80Y18
    UniProtKB/TrEMBL
    Q3TWA9
    Related
    ENSMUSP00000068858.4, ENSMUST00000065360.5
    Conserved Domains (3) summary
    COG5189
    Location:298 → 382
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:276 → 296
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18366
    Location:219 → 264
    zf_ZIC; Zic proteins zinc finger domain

  2. NM_009573.4 → NP_033599.2  zinc finger protein ZIC 1

    See identical proteins and their annotated locations for NP_033599.2

    Status: VALIDATED

    Description
    Transcript Variant: Variants 1 and 2 encode the same protein.
    Source sequence(s)
    AK141431, BC063247, BY261991, CD741655, CN666056
    Consensus CDS
    CCDS23403.1
    UniProtKB/Swiss-Prot
    P46684, Q6PAK5, Q80Y18
    UniProtKB/TrEMBL
    Q3TWA9
    Related
    ENSMUSP00000034927.7, ENSMUST00000034927.13
    Conserved Domains (3) summary
    COG5189
    Location:298 → 382
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:276 → 296
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18366
    Location:219 → 264
    zf_ZIC; Zic proteins zinc finger domain

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000075.7 Reference GRCm39 C57BL/6J

    Range
    91240111..91250136 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_036154847.1 → XP_036010740.1  zinc finger protein ZIC 1 isoform X1

    UniProtKB/Swiss-Prot
    P46684, Q6PAK5, Q80Y18
    UniProtKB/TrEMBL
    Q3TWA9
    Conserved Domains (3) summary
    COG5189
    Location:298 → 382
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:276 → 296
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18366
    Location:219 → 264
    zf_ZIC; Zic proteins zinc finger domain
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P46684.2 GenPept UniProtKB/Swiss-Prot:P46684

Gene LinkOut

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