U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

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

    Gene ID: 30692, updated on 9-Dec-2024

    Summary

    Go to the top of the page Help
    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 DNA-templated transcription. Predicted to be located in nucleus. Is expressed in several structures, including brain; hindbrain neural rod; midbrain neural keel; neural plate; and posterior neural keel. Orthologous to human EBF2 (EBF transcription factor 2). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
    all
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See ebf2 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 5 NC_007116.7 (67390600..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

    Go to the top of the page Help

    Go to nucleotide: Graphics FASTA GenBank

    Expression

    Go to the top of the page Help
    • 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

    Go to the top of the pageHelp

    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. Elongation of the developing spinal cord is driven by Oct4-type transcription factor-mediated regulation of retinoic acid signaling in zebrafish embryos. Yuikawa T, et al. Dev Dyn, 2024 Apr. PMID 37850839

    See all (22) 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

    Go to the top of the page Help

    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

    Go to the top of the page Help
    Preferred Names
    transcription factor COE2
    Names
    HLH-containing transcription factor
    early B cell factor 2

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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: 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

    1. NC_007116.7 Reference GRCz11 Primary Assembly

      Range
      67390600..67439831
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_005165618.5 → 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

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools