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ebf2 EBF transcription factor 2 [ Danio rerio (zebrafish) ]

Gene ID: 30692, updated on 19-Jun-2024

Summary

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Official Symbol
ebf2provided by ZNC
Official Full Name
EBF transcription factor 2provided by ZNC
Primary source
ZFIN:ZDB-GENE-990715-11
See related
Ensembl:ENSDARG00000042525 AllianceGenome:ZFIN:ZDB-GENE-990715-11
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
coe2; Zcoe2
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. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Is expressed in several structures, including anterior neural plate; brain; hindbrain neural rod; midbrain neural keel; and posterior neural keel. Orthologous to human EBF2 (EBF transcription factor 2). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
all
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Genomic context

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See ebf2 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
16
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (67390554..67439831)
105 previous assembly GRCz10 (GCF_000002035.5) 5 NC_007116.6 (66712163..66761462)

Chromosome 5 - NC_007116.7Genomic Context describing neighboring genes Neighboring gene uracil DNA glycosylase a Neighboring gene SEBOX homeobox Neighboring gene si:dkey-251i10.1 Neighboring gene si:dkey-251i10.2

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Her5 acts as a prepattern factor that blocks neurogenin1 and coe2 expression upstream of Notch to inhibit neurogenesis at the midbrain-hindbrain boundary. Geling A, et al. Development, 2004 May. PMID 15056616
  2. Her6 regulates the neurogenetic gradient and neuronal identity in the thalamus. Scholpp S, et al. Proc Natl Acad Sci U S A, 2009 Nov 24. PMID 19903880, Free PMC Article
  3. Expression of ventral diencephalon-enriched genes in zebrafish. Li S, et al. Dev Dyn, 2010 Dec. PMID 21061380
  4. parachute/n-cadherin is required for morphogenesis and maintained integrity of the zebrafish neural tube. Lele Z, et al. Development, 2002 Jul. PMID 12091300
  5. The autism susceptibility gene met regulates zebrafish cerebellar development and facial motor neuron migration. Elsen GE, et al. Dev Biol, 2009 Nov 1. PMID 19732764, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Data suggest that Her5 acts as a prepattern gene to suppress both neurogenin1 (ngn1) and coe2 mRNA expression and to prevent neurogenesis in the anlage of the midbrain/hindbrain boundary in the zebrafish neural plate.
    Title: Her5 acts as a prepattern factor that blocks neurogenin1 and coe2 expression upstream of Notch to inhibit neurogenesis at the midbrain-hindbrain boundary.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

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 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 nervous system development IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
more info
  
involved_in regulation of transcription by RNA polymerase II IBA
Inferred from Biological aspect of Ancestor
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
transcription factor COE2
Names
HLH-containing transcription factor
early B cell factor 2

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)

  1. NM_131418.2 → NP_571493.2  transcription factor COE2

    See identical proteins and their annotated locations for NP_571493.2

    Status: VALIDATED

    Source sequence(s)
    BX957226, CR786568
    UniProtKB/Swiss-Prot
    O93375
    UniProtKB/TrEMBL
    A2BIQ0, B3DGS7
    Related
    ENSDARP00000009986.8, ENSDART00000014822.9
    Conserved Domains (3) summary
    cd01175
    Location:260 → 344
    IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...
    pfam16422
    Location:21 → 245
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:345 → 388
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain

RefSeqs of Annotated Genomes: Danio rerio Annotation Release 106 details...Open this link in a new tab

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

Reference GRCz11 Primary Assembly

Genomic

  1. NC_007116.7 Reference GRCz11 Primary Assembly

    Range
    67390554..67439831
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_005165618.4 → XP_005165675.1  transcription factor COE2 isoform X1

    See identical proteins and their annotated locations for XP_005165675.1

    UniProtKB/Swiss-Prot
    O93375
    UniProtKB/TrEMBL
    A0A8M2BCW5
    Conserved Domains (3) summary
    cd01175
    Location:262 → 346
    IPT_COE; IPT domain of the COE family (Col/Olf-1/EBF) of non-basic, helix-loop-helix (HLH)-containing transcription factors. COE family proteins are all transcription factors and play an important role in variety of developmental processes. Mouse EBF is involved ...
    pfam16422
    Location:21 → 247
    COE1_DBD; Transcription factor COE1 DNA-binding domain
    pfam16423
    Location:347 → 390
    COE1_HLH; Transcription factor COE1 helix-loop-helix domain
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
O93375.1 GenPept UniProtKB/Swiss-Prot:O93375

Gene LinkOut

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