gata3 GATA binding protein 3 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: gata3provided by ZNC
Official Full Name: GATA binding protein 3provided by ZNC
Primary source: ZFIN:ZDB-GENE-990415-82
See related: Ensembl:ENSDARG00000016526 AllianceGenome:ZFIN:ZDB-GENE-990415-82
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: gta3; cb550
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. Involved in several processes, including fin regeneration; positive regulation of neurogenesis; and positive regulation of neuron migration. Acts upstream of or within cardiac muscle tissue regeneration; embryonic organ morphogenesis; and ventral spinal cord interneuron differentiation. Predicted to be located in nucleus. Is expressed in several structures, including digestive system; ectoderm; nervous system; neural tube; and pleuroperitoneal region. Used to study hypoparathyroidism-retardation-dysmorphism syndrome. Human ortholog(s) of this gene implicated in hypoparathyroidism; hypoparathyroidism-deafness-renal disease syndrome; nephrosis; and sensorineural hearing loss. Orthologous to human GATA3 (GATA binding protein 3). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 4

Exon count:: 7

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	4	NC_007115.7 (25054510..25069758, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	4	NC_007115.6 (25064821..25080494, complement)

Chromosome 4 - NC_007115.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

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?

Variation in phenotypes from a Bmp-Gata3 genetic pathway is modulated by Shh signaling.
Title: Variation in phenotypes from a Bmp-Gata3 genetic pathway is modulated by Shh signaling.
gata3 acts as a specific injury-induced proregenerative factor that is essential for the regenerative capacity in vertebrates
Title: Regenerative neurogenesis from neural progenitor cells requires injury-induced expression of Gata3.

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General gene information

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Gene Ontology Provided by ZFIN

Function	Evidence Code	Pubs
enables DNA binding	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity	IEA Inferred from Electronic Annotation more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IEA Inferred from Electronic Annotation 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
enables sequence-specific DNA binding	IEA Inferred from Electronic Annotation more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within cardiac muscle tissue regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell fate commitment	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within ectodermal placode development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ectodermal placode formation	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic neurocranium morphogenesis	IGI Inferred from Genetic Interaction more info	PubMed
acts_upstream_of_or_within embryonic neurocranium morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in embryonic organ development	IBA Inferred from Biological aspect of Ancestor more info
involved_in fibroblast growth factor receptor signaling pathway	IDA Inferred from Direct Assay more info	PubMed
acts_upstream_of_or_within fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in fin regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in immune system development	IBA Inferred from Biological aspect of Ancestor more info
involved_in negative regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within otic placode formation	IGI Inferred from Genetic Interaction more info	PubMed
involved_in positive regulation of cell population proliferation	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neurogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron migration	IMP Inferred from Mutant Phenotype 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 regulation of DNA-templated transcription	IEA Inferred from Electronic Annotation more info
involved_in regulation of epithelial cell differentiation	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within regulation of transcription by RNA polymerase II	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within tissue regeneration	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within ventral spinal cord interneuron differentiation	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: transcription factor GATA-3

Names: GATA-binding factor 3

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_131211.1 → NP_571286.1 transcription factor GATA-3

See identical proteins and their annotated locations for NP_571286.1

Status: PROVISIONAL

Source sequence(s)

S80425

UniProtKB/Swiss-Prot

Q91428

UniProtKB/TrEMBL

B3DGG5

Related

ENSDARP00000017572.6, ENSDART00000025153.7

Conserved Domains (2) summary

smart00401
Location:305 → 354

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:309 → 360

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...

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

Reference GRCz11 Primary Assembly

Genomic

NC_007115.7 Reference GRCz11 Primary Assembly

Range

25054510..25069758 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005164805.4 → XP_005164862.1 transcription factor GATA-3 isoform X1

See identical proteins and their annotated locations for XP_005164862.1

UniProtKB/Swiss-Prot

Q91428

UniProtKB/TrEMBL

B3DGG5

Conserved Domains (2) summary

smart00401
Location:305 → 354

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:309 → 360

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
XM_005164809.4 → XP_005164866.1 transcription factor GATA-3 isoform X4

UniProtKB/TrEMBL

A0A8M2BC31

Conserved Domains (2) summary

smart00401
Location:251 → 300

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:255 → 306

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
XM_005164808.4 → XP_005164865.1 transcription factor GATA-3 isoform X3

UniProtKB/TrEMBL

A0A8M2BC50

Conserved Domains (2) summary

smart00401
Location:270 → 319

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:274 → 325

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
XM_005164807.4 → XP_005164864.1 transcription factor GATA-3 isoform X2

UniProtKB/TrEMBL

A0A8M2BC08

Conserved Domains (2) summary

smart00401
Location:286 → 335

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:290 → 341

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C
XM_021474926.1 → XP_021330601.1 transcription factor GATA-3 isoform X5

UniProtKB/TrEMBL

A0A8M9Q5R9

Conserved Domains (2) summary

smart00401
Location:305 → 343

ZnF_GATA; zinc finger binding to DNA consensus sequence [AT]GATA[AG]

cd00202
Location:255 → 305

ZnF_GATA; Zinc finger DNA binding domain; binds specifically to DNA consensus sequence [AT]GATA[AG] promoter elements; a subset of family members may also bind protein; zinc-finger consensus topology is C-X(2)-C-X(17)-C-X(2)-C