egr2b early growth response 2b [Danio rerio (zebrafish)] - Gene

Summary

Official Symbol: egr2bprovided by ZNC
Official Full Name: early growth response 2bprovided by ZNC
Primary source: ZFIN:ZDB-GENE-980526-283
See related: Ensembl:ENSDARG00000042826 AllianceGenome:ZFIN:ZDB-GENE-980526-283
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: egr2; cb427; krx20; KRX-20; krox20; zgc:92210; id:ibd5073; wu:fb71h10
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 embryonic organ development and nervous system development. Predicted to be located in nucleus. Is expressed in several structures, including nervous system; neural crest; neural keel; neural plate; and neural rod. Human ortholog(s) of this gene implicated in Charcot-Marie-Tooth disease type 1D; Charcot-Marie-Tooth disease type 3; Charcot-Marie-Tooth disease type 4E; and motor peripheral neuropathy. Orthologous to human EGR2 (early growth response 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs: human mouse all
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Genomic context

Location:: chromosome: 12

Exon count:: 3

Annotation release	Status	Assembly	Chr	Location
106	current	GRCz11 (GCF_000002035.6)	12	NC_007123.7 (8483834..8504291, complement)
105	previous assembly	GRCz10 (GCF_000002035.5)	12	NC_007123.6 (8445995..8448484, complement)

Chromosome 12 - NC_007123.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

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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?

We performed a global analysis of the cis-acting elements involved in the control of the zebrafish developmental gene krox20. krox20 encodes a transcription factor required for hindbrain segmentation and patterning, a morphogenetic process highly conserved during vertebrate evolution.
Title: Cooperation, cis-interactions, versatility and evolutionary plasticity of multiple cis-acting elements underlie krox20 hindbrain regulation.
A direct, positive autoregulatory loop amplifies and maintains the expression of Krox20, a transcription factor governing vertebrate hindbrain segmentation.
Title: Dissection of a Krox20 positive feedback loop driving cell fate choices in hindbrain patterning.
Hindbrain patterning requires fine-tuning of early krox20 transcription by Sprouty 4.
Title: Hindbrain patterning requires fine-tuning of early krox20 transcription by Sprouty 4.
Data show that Irx7 and Irx1b are required for the proper formation and specification of rhombomeres 1 to 4, and that Irx7 functionally interacts with Meis1.1 to activate the expression of anterior hindbrain markers, such as krox20.
Title: A functional interaction between Irx and Meis patterns the anterior hindbrain and activates krox20 expression in rhombomere 3.

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General gene information

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Markers

fb71h10 (e-PCR)
- UniSTS:187399

krx20 (e-PCR)
- UniSTS:205581

krx20 (e-PCR)
- UniSTS:186980

fb71h10.x1 (e-PCR)
- UniSTS:203417

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 metal ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in anatomical structure morphogenesis	IEA Inferred from Electronic Annotation more info
involved_in embryo development	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within embryonic organ development	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within hindbrain morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within myelination of posterior lateral line nerve axons	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
acts_upstream_of_or_within rhombomere boundary formation	IMP Inferred from Mutant Phenotype more info

Component	Evidence Code	Pubs
located_in nucleus	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: early growth response protein 2b

Names: EGR-2b; krox-20; protein krx-20; zinc finger protein Krox-20

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_130997.2 → NP_571072.2 early growth response protein 2b

See identical proteins and their annotated locations for NP_571072.2

Status: PROVISIONAL

Source sequence(s)

BC081622

UniProtKB/Swiss-Prot

Q05159

UniProtKB/TrEMBL

A0A8N7UZF2, Q66HY5

Related

ENSDARP00000062854.4, ENSDART00000062855.5

Conserved Domains (5) summary

COG5048
Location:327 → 411

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

sd00017
Location:301 → 323

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam00096
Location:299 → 323

zf-C2H2; Zinc finger, C2H2 type

pfam11928
Location:92 → 164

DUF3446; Domain of unknown function (DUF3446)

pfam13465
Location:343 → 368

zf-H2C2_2; Zinc-finger double domain

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_007123.7 Reference GRCz11 Primary Assembly

Range

8483834..8504291 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_021480019.1 → XP_021335694.1 early growth response protein 2b isoform X1

UniProtKB/Swiss-Prot

Q05159

UniProtKB/TrEMBL

A0A8M9QE34

Conserved Domains (4) summary

COG5048
Location:266 → 350

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

sd00017
Location:240 → 262

ZF_C2H2; C2H2 Zn finger [structural motif]

pfam11928
Location:31 → 103

DUF3446; Domain of unknown function (DUF3446)

pfam13465
Location:282 → 307

zf-H2C2_2; Zinc-finger double domain