zic5 zic family member 5 (odd-paired homolog, Drosophila) [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: zic5provided by ZNC
Official Full Name: zic family member 5 (odd-paired homolog, Drosophila)provided by ZNC
Primary source: ZFIN:ZDB-GENE-040622-1
See related: Ensembl:ENSDARG00000016022 AllianceGenome:ZFIN:ZDB-GENE-040622-1
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
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 nervous system development and regulation of cell population proliferation. Predicted to be active in nucleus. Is expressed in several structures, including apical ectodermal ridge pectoral fin bud; central nervous system; lateral plate mesoderm; neural plate; and optic vesicle. Orthologous to human ZIC5 (Zic family member 5). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 9

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	9	NC_007120.7 (31274108..31278048, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	9	NC_007120.6 (31463362..31467302, complement)

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.
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.
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.
zin5 is a new member of the zic gene family
Title: Sequence relationships and expression patterns of zebrafish zic2 and zic5 genes.

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General gene information

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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 midbrain	IGI Inferred from Genetic Interaction 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 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 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 neurogenesis	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 5

Names: zinc finger protein Zic5

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_205727.1 → NP_991290.1 zinc finger protein ZIC 5

See identical proteins and their annotated locations for NP_991290.1

Status: PROVISIONAL

Source sequence(s)

AY326458

UniProtKB/TrEMBL

B3DG29, Q6VUB8

Related

ENSDARP00000024199.4, ENSDART00000022204.5

Conserved Domains (3) summary

sd00017
Location:298 → 318

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:340 → 367

zf-H2C2_2; Zinc-finger double domain

pfam15909
Location:325 → 407

zf-C2H2_8; C2H2-type zinc ribbon