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Zic2 zinc finger protein of the cerebellum 2 [ Mus musculus (house mouse) ]

Gene ID: 22772, updated on 11-Oct-2022

Summary

Official Symbol
Zic2provided by MGI
Official Full Name
zinc finger protein of the cerebellum 2provided by MGI
Primary source
MGI:MGI:106679
See related
Ensembl:ENSMUSG00000061524 AllianceGenome:MGI:106679
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
Ku; HPE5
Summary
Enables DNA-binding transcription activator activity, RNA polymerase II-specific; RNA polymerase II cis-regulatory region sequence-specific DNA binding activity; and chromatin DNA binding activity. Involved in regulation of transcription, DNA-templated; retinal ganglion cell axon guidance; and visual perception. Acts upstream of or within several processes, including cilium organization; nervous system development; and positive regulation of nodal signaling pathway involved in determination of lateral mesoderm left/right asymmetry. Located in cytoplasm and nucleus. Is expressed in several structures, including alimentary system; brain; embryo mesenchyme; eye; and neural ectoderm. Used to study holoprosencephaly 5 and schizophrenia. Human ortholog(s) of this gene implicated in holoprosencephaly and holoprosencephaly 5. Orthologous to human ZIC2 (Zic family member 2). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in cerebellum adult (RPKM 37.4), whole brain E14.5 (RPKM 15.2) and 5 other tissues See more
Orthologs
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Genomic context

See Zic2 in Genome Data Viewer
Location:
14 E5; 14 65.97 cM
Exon count:
3
Annotation release Status Assembly Chr Location
109 current GRCm39 (GCF_000001635.27) 14 NC_000080.7 (122712796..122717740)
108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 14 NC_000080.6 (122475384..122480328)

Chromosome 14 - NC_000080.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 2610035F20 gene Neighboring gene predicted gene, 53847 Neighboring gene predicted gene, 33769 Neighboring gene PRELI domain containing 1 pseudogene Neighboring gene propionyl-Coenzyme A carboxylase, alpha polypeptide

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

Homology

Gene Ontology Provided by MGI

Process Evidence Code Pubs
involved_in axial mesoderm development 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
PubMed 
acts_upstream_of_or_within central nervous system development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in central nervous system segmentation IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within cilium organization IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within developmental pigmentation 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 
acts_upstream_of_or_within multicellular organism development IEA
Inferred from Electronic Annotation
more info
 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within nervous system development IMP
Inferred from Mutant Phenotype
more info
PubMed 
acts_upstream_of_or_within neural crest cell differentiation IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in neural plate development IGI
Inferred from Genetic Interaction
more info
PubMed 
acts_upstream_of_or_within neural tube closure IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in paraxial mesoderm development IGI
Inferred from Genetic Interaction
more info
PubMed 
involved_in positive regulation of DNA-binding transcription factor activity IDA
Inferred from Direct Assay
more info
PubMed 
involved_in positive regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
PubMed 
acts_upstream_of_or_within positive regulation of nodal signaling pathway involved in determination of lateral mesoderm left/right asymmetry IMP
Inferred from Mutant Phenotype
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 transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
involved_in retinal ganglion cell axon guidance IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in visual perception 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 nuclear body ISO
Inferred from Sequence Orthology
more info
 
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
located_in nucleus IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
zinc finger protein ZIC 2
Names
GENA 29
Zic family member 2 (odd-paired homolog, Drosophila)
kumba
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_009574.3NP_033600.3  zinc finger protein ZIC 2

    See identical proteins and their annotated locations for NP_033600.3

    Status: VALIDATED

    Source sequence(s)
    AC154683, AK161979, BB655427, BE988982
    Consensus CDS
    CCDS27349.1
    UniProtKB/TrEMBL
    F8VPV3
    Related
    ENSMUSP00000075283.6, ENSMUST00000075888.6
    Conserved Domains (3) summary
    COG5189
    Location:328412
    SFP1; Putative transcriptional repressor regulating G2/M transition [Transcription / Cell division and chromosome partitioning]
    sd00017
    Location:306326
    ZF_C2H2; C2H2 Zn finger [structural motif]
    pfam18366
    Location:249294
    zf_ZIC; Zic proteins zinc finger domain

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Reference GRCm39 C57BL/6J

Genomic

  1. NC_000080.7 Reference GRCm39 C57BL/6J

    Range
    122712796..122717740
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)