egr1 early growth response 1 [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: egr1provided by ZNC
Official Full Name: early growth response 1provided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-320
See related: Ensembl:ENSDARG00000037421 AllianceGenome:ZFIN:ZDB-GENE-980526-320
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: krox24; krox-24; wu:fj64b05; wu:fq25f01
Summary: Predicted to enable several functions, including double-stranded DNA binding activity; promoter-specific chromatin binding activity; and zinc ion binding activity. Acts upstream of or within embryonic retina morphogenesis in camera-type eye; embryonic viscerocranium morphogenesis; and glial cell development. Predicted to be located in cytoplasm and nucleus. Is expressed in head; heart; hindbrain neural keel; mesoderm; and nervous system. Human ortholog(s) of this gene implicated in asthma. Orthologous to human EGR1 (early growth response 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 14

Exon count:: 2

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	14	NC_007125.7 (21333720..21335961, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	14	NC_007125.6 (21036475..21038716, complement)

Chromosome 14 - NC_007125.7 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?

Identification of a Functional Susceptibility Variant for Adolescent Idiopathic Scoliosis that Upregulates Early Growth Response 1 (EGR1)-Mediated UNCX Expression.
Title: Identification of a Functional Susceptibility Variant for Adolescent Idiopathic Scoliosis that Upregulates Early Growth Response 1 (EGR1)-Mediated UNCX Expression.
Egr1 Is Necessary for Forebrain Dopaminergic Signaling during Social Behavior.
Title: Egr1 Is Necessary for Forebrain Dopaminergic Signaling during Social Behavior.
egr1 colocalizes with tyrosine hydroxylase in the olfactory bulb throughout brain development.
Title: Correlated basal expression of immediate early gene egr1 and tyrosine hydroxylase in zebrafish brain and downregulation in olfactory bulb after transitory olfactory deprivation.
successive induction of the transcription factors Runx3, Egr1 and Sox9b constitutes a regulatory cascade that controls expression of Follistatin A in pharyngeal endoderm, the latter modulating BMP signaling in developing cranial cartilage in zebrafish
Title: RUNX3, EGR1 and SOX9B form a regulatory cascade required to modulate BMP-signaling during cranial cartilage development in zebrafish.
The cDNA coding for zebrafish Egr1 was obtained and its expression pattern was examined during zebrafish embryogenesis using whole-mount in situ hybridization
Title: Expression of the zinc finger Egr1 gene during zebrafish embryonic development.
Egr1 gene has important role in zebrafish embryonic oculogenesis. Lens and retina with egr1 gene deletion were primitive and lacked differentiation. Such arrested retinal and lenticular development in Egr1 morphants resulted in microphthalmos.
Title: Egr1 gene knockdown affects embryonic ocular development in zebrafish.

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General gene information

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Markers

egr1 (e-PCR), detects polymorphism
- UniSTS:186946

fj64b05.x1 (e-PCR)
- UniSTS:188760

egr1 (e-PCR), detects polymorphism
- UniSTS:238202

Z6804 (e-PCR)
- UniSTS:204721

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, 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 double-stranded methylated DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables hemi-methylated DNA-binding	ISS Inferred from Sequence or Structural Similarity more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables promoter-specific chromatin binding	ISS Inferred from Sequence or Structural Similarity more info
enables sequence-specific DNA binding	ISS Inferred from Sequence or Structural Similarity more info
enables zinc ion binding	ISS Inferred from Sequence or Structural Similarity more info

Process	Evidence Code	Pubs
acts_upstream_of_or_within camera-type eye development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in circadian regulation of gene expression	ISS Inferred from Sequence or Structural Similarity more info
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 glial cell development	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of DNA-templated transcription	ISS Inferred from Sequence or Structural Similarity more info
involved_in positive regulation of transcription by RNA polymerase II	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within retina development in camera-type eye	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within rhythmic process	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in nucleus	IEA Inferred from Electronic Annotation more info
located_in nucleus	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: early growth response protein 1

Names: EGR-1; etID309970.14; zinc finger protein Krox-24

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_131248.1 → NP_571323.1 early growth response protein 1

See identical proteins and their annotated locations for NP_571323.1

Status: PROVISIONAL

Source sequence(s)

U12895

UniProtKB/Swiss-Prot

P26632

UniProtKB/TrEMBL

B3DKJ7

Related

ENSDARP00000054459.5, ENSDART00000054460.6

Conserved Domains (5) summary

sd00017
Location:313 → 335

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:311 → 335

zf-C2H2; Zinc finger, C2H2 type

pfam11914
Location:403 → 498

DUF3432; Domain of unknown function (DUF3432)

pfam11928
Location:99 → 185

DUF3446; Domain of unknown function (DUF3446)

pfam13465
Location:355 → 380

zf-H2C2_2; Zinc-finger double domain