zic4 zic family member 4 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: zic4provided by ZNC
Official Full Name: zic family member 4provided by ZNC
Primary source: ZFIN:ZDB-GENE-040622-4
See related: Ensembl:ENSDARG00000031307 AllianceGenome:ZFIN:ZDB-GENE-040622-4
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Danio rerio
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio
Also known as: fj36d02; wu:fj36d02; zgc:154123
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 cell proliferation in hindbrain and fourth ventricle development. Predicted to be active in nucleus. Is expressed in several structures, including anterior neural keel; central nervous system; hindbrain neural rod; lateral plate mesoderm; and neural plate. Orthologous to human ZIC4 (Zic family member 4). [provided by Alliance of Genome Resources, Dec 2024]
Orthologs: all
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Genomic context

Location:: chromosome: 24

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCz11 (GCF_000002035.6)	24	NC_007135.7 (4977867..4982423)
105	previous assembly	GRCz10 (GCF_000002035.5)	24	NC_007135.6 (4944850..4950632)

Chromosome 24 - NC_007135.7 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?

Zic1 and Zic4 control zebrafish 4th ventricle morphogenesis by regulating multiple mechanisms including cell proliferation and fate specification in the dorsal hindbrain.
Title: Zic1 and Zic4 regulate zebrafish roof plate specification and hindbrain ventricle morphogenesis.

Submit: New GeneRIF Correction

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 hindbrain	IGI Inferred from Genetic Interaction more info	PubMed
involved_in central nervous system development	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within fourth ventricle development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hindbrain development	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 4

Names: zinc finger of the cerebellum 4

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_001076612.2 → NP_001070080.2 zinc finger protein ZIC 4

Status: VALIDATED

Source sequence(s)

CR388127

UniProtKB/TrEMBL

Q08BV0

Related

ENSDARP00000102801.2, ENSDART00000114537.3

RefSeqs of Annotated Genomes: GCF_000002035.6-RS_2024_08

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

Reference GRCz11 Primary Assembly

Genomic

NC_007135.7 Reference GRCz11 Primary Assembly

Range

4977867..4982423

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005162519.5 → XP_005162576.1 zinc finger protein ZIC 4 isoform X1

See identical proteins and their annotated locations for XP_005162576.1

UniProtKB/TrEMBL

A0A8M2B9P2, B2BM15, Q08BV0

Related

ENSDARP00000045812.6, ENSDART00000045813.9

Conserved Domains (3) summary

COG5048
Location:260 → 407

COG5048; FOG: Zn-finger [General function prediction only]

sd00017
Location:297 → 317

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam13465
Location:339 → 366

zf-H2C2_2; Zinc-finger double domain