zic2a zic family member 2 (odd-paired homolog, Drosophila), a [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: zic2aprovided by ZNC
Official Full Name: zic family member 2 (odd-paired homolog, Drosophila), aprovided by ZNC
Primary source: ZFIN:ZDB-GENE-000710-4
See related: Ensembl:ENSDARG00000015554 AllianceGenome:ZFIN:ZDB-GENE-000710-4
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: zic2; cb851; zic2.1; fb26a03; wu:fb26a03
Summary: Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within several processes, including animal organ development; neural tube formation; and regulation of signal transduction. Predicted to be active in nucleus. Is expressed in several structures, including anterior neural keel; central nervous system; ectoderm; neural plate; and presumptive structure. 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]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 9

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	9	NC_007120.7 (31282230..31287010)
105	previous assembly	GRCz10 (GCF_000002035.5)	9	NC_007120.6 (31471484..31476264)

Chromosome 9 - NC_007120.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
Description: Sequencing the Zebrafish transcriptome from a range of tissues and developmental stages
BioProject: PRJEB1986
Analysis date: Fri Dec 8 19:48:10 2017

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Comparative sequence analysis and functional validation identified a retina-specific enhancer around zic5 and zic2a.
Title: Comparative sequence analysis and functional validation identified a retina-specific enhancer around zic5 and zic2a.
these data establish zic2 mutant zebrafish as a powerful new genetic model for in-depth dissection of cell interactions and genetic controls during craniofacial complex development.
Title: Zebrafish zic2 controls formation of periocular neural crest and choroid fissure morphogenesis.
Zic2a and Zic2b play a dual role during craniofacial development, in neural crest induction and migration, and in craniofacial chondrogenesis patterning
Title: Zebrafish Zic2a and Zic2b regulate neural crest and craniofacial development.
These data uncover a novel, essential role for Zic2a as a modulator of Hedgehog-activated gene expression in the developing forebrain
Title: Zebrafish zic2a patterns the forebrain through modulation of Hedgehog-activated gene expression.
Zic2a and zic5 as crucial players in the genetic network linking patterned gene expression to morphogenetic changes during neurulation.
Title: A novel genetic mechanism regulates dorsolateral hinge-point formation during zebrafish cranial neurulation.
the results identify Zic2a as a novel regulator of prethalamic development, and show that it functions independently of hedgehog signaling.
Title: A novel role for zebrafish zic2a during forebrain development.
Zic2a and Zic5 have essential, cooperative roles in promoting cell proliferation in the tectum, but lack obvious patterning functions.
Title: The zebrafish zic2a-zic5 gene pair acts downstream of canonical Wnt signaling to control cell proliferation in the developing tectum.

Submit: New GeneRIF Correction

General gene information

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Markers

fb26a03.y1 (e-PCR)
- UniSTS:203094

fj38d11.y1 (e-PCR)
- UniSTS:199259

Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
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 metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cell proliferation in forebrain	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within cell proliferation in midbrain	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within diencephalon development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within diencephalon development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within dorsal/ventral pattern formation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic retina morphogenesis in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within embryonic viscerocranium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hindbrain development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within midbrain development	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within midbrain development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within negative regulation of DNA-templated transcription	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neural crest cell development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within neural tube formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within regulation of retinoic acid receptor signaling pathway	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within regulation of smoothened signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: zinc finger protein ZIC 2a

Names: zinc finger cerebellum 2

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_131558.1 → NP_571633.1 zinc finger protein ZIC 2a

See identical proteins and their annotated locations for NP_571633.1

Status: PROVISIONAL

Source sequence(s)

AF151535

UniProtKB/TrEMBL

Q6P0G0, Q9IAT0

Related

ENSDARP00000026131.6, ENSDART00000010774.7

Conserved Domains (3) summary

sd00017
Location:275 → 295

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:361 → 383

zf-C2H2; Zinc finger, C2H2 type

pfam13465
Location:317 → 344

zf-H2C2_2; Zinc-finger double domain