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

Gene ID: 22773, updated on 12-May-2024

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
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Genomic context

See Zic3 in Genome Data Viewer
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_000086.8Genomic Context describing neighboring genes Neighboring gene 60S ribosomal protein L23-like Neighboring gene predicted gene, 25023 Neighboring gene STARR-seq mESC enhancer starr_47220 Neighboring gene ES cell cis-regulatory motifs 6b and 6c Neighboring gene STARR-seq mESC enhancer starr_47224 Neighboring gene STARR-seq mESC enhancer starr_47225 Neighboring gene predicted gene, 36466 Neighboring gene predicted gene, 36522

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Variation

Alleles

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

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

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

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)

  1. NM_009575.2NP_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:323407
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:301321
    ZF_C2H2; C2H2 Zn finger [structural motif]

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_000086.8 Reference GRCm39 C57BL/6J

    Range
    57075988..57081990
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)