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    ebf3a EBF transcription factor 3a [ Danio rerio (zebrafish) ]

    Gene ID: 567751, updated on 2-Nov-2024

    Summary

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    Official Symbol
    ebf3aprovided by ZNC
    Official Full Name
    EBF transcription factor 3aprovided by ZNC
    Primary source
    ZFIN:ZDB-GENE-070112-292
    See related
    Ensembl:ENSDARG00000100244 AllianceGenome:ZFIN:ZDB-GENE-070112-292
    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
    ebf3; zgc:158829
    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 brain and sensory system. Human ortholog(s) of this gene implicated in hypotonia, ataxia, and delayed development syndrome. Orthologous to several human genes including EBF1 (EBF transcription factor 1). [provided by Alliance of Genome Resources, Nov 2024]
    Orthologs
    human mouse all
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    Genomic context

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    See ebf3a in Genome Data Viewer
    Location:
    chromosome: 12
    Exon count:
    16
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCz11 (GCF_000002035.6) 12 NC_007123.7 (42436329..42578687)
    105 previous assembly GRCz10 (GCF_000002035.5) 12 NC_007123.6 (42281045..42423390)

    Chromosome 12 - NC_007123.7Genomic Context describing neighboring genes Neighboring gene si:ch211-221j21.3 Neighboring gene glutaredoxin 3 Neighboring gene uncharacterized LOC110440149 Neighboring gene uncharacterized LOC137496842

    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 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. Expression of ventral diencephalon-enriched genes in zebrafish. Li S, et al. Dev Dyn, 2010 Dec. PMID 21061380
    2. Zdhhc15b Regulates Differentiation of Diencephalic Dopaminergic Neurons in zebrafish. Wang F, et al. J Cell Biochem, 2015 Dec. PMID 26095893
    3. Expression Profiling of Developing Zebrafish Retinal Cells. Mullally M, et al. Zebrafish, 2016 Aug. PMID 26982811
    4. Efficient disruption of Zebrafish genes using a Gal4-containing gene trap. Balciuniene J, et al. BMC Genomics, 2013 Sep 14. PMID 24034702, Free PMC Article
    5. scRNA-Seq reveals distinct stem cell populations that drive hair cell regeneration after loss of Fgf and Notch signaling. Lush ME, et al. Elife, 2019 Jan 25. PMID 30681411, Free PMC Article

    See all (13) citations in PubMed

    GeneRIFs: Gene References Into Functions

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    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 COE3a
    Names
    early B cell factor 3a
    early B-cell 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)

    1. NM_001080602.1 → NP_001074071.1  transcription factor COE3a

      See identical proteins and their annotated locations for NP_001074071.1

      Status: PROVISIONAL

      Source sequence(s)
      BC129478
      UniProtKB/TrEMBL
      A0A0R4ISE7, A1L2E2, B2GPA4
      Related
      ENSDARP00000137939.1, ENSDART00000167324.2
      Conserved Domains (3) summary
      cd01175
      Location:255 → 339
      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:340 → 383
      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_007123.7 Reference GRCz11 Primary Assembly

      Range
      42436329..42578687
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_009306901.4 → XP_009305176.1  transcription factor COE3a isoform X1

      UniProtKB/TrEMBL
      A0A8M3BEC3
      Conserved Domains (3) summary
      cd01175
      Location:264 → 348
      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:349 → 392
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    2. XM_009306905.4 → XP_009305180.1  transcription factor COE3a isoform X9

      UniProtKB/TrEMBL
      A0A8M3AYP6
      Conserved Domains (3) summary
      cd01175
      Location:264 → 348
      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:349 → 392
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    3. XM_009306906.4 → XP_009305181.1  transcription factor COE3a isoform X13

      UniProtKB/TrEMBL
      A0A8M3BEC5
      Conserved Domains (3) summary
      cd01175
      Location:264 → 348
      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:349 → 392
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    4. XM_005156408.5 → XP_005156465.1  transcription factor COE3a isoform X3

      UniProtKB/TrEMBL
      A0A8M2B3A0
      Conserved Domains (3) summary
      cd01175
      Location:264 → 348
      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:349 → 392
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    5. XM_005156414.5 → XP_005156471.1  transcription factor COE3a isoform X10

      UniProtKB/TrEMBL
      A0A8M2B2S0
      Conserved Domains (3) summary
      cd01175
      Location:264 → 348
      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:349 → 392
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    6. XM_005156416.5 → XP_005156473.1  transcription factor COE3a isoform X14

      UniProtKB/TrEMBL
      A0A8M2B369
      Conserved Domains (3) summary
      cd01175
      Location:264 → 348
      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:349 → 392
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    7. XM_009306902.4 → XP_009305177.1  transcription factor COE3a isoform X2

      UniProtKB/TrEMBL
      A0A8M3AYM5
      Conserved Domains (3) summary
      cd01175
      Location:263 → 347
      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:348 → 391
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    8. XM_005156409.5 → XP_005156466.1  transcription factor COE3a isoform X4

      UniProtKB/TrEMBL
      A0A8M2B362
      Conserved Domains (3) summary
      cd01175
      Location:263 → 347
      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:348 → 391
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    9. XM_068224639.1 → XP_068080740.1  transcription factor COE3a isoform X11

    10. XM_009306903.4 → XP_009305178.1  transcription factor COE3a isoform X5

      UniProtKB/TrEMBL
      A0A8M3B7N8
      Conserved Domains (3) summary
      cd01175
      Location:255 → 339
      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:340 → 383
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    11. XM_005156411.5 → XP_005156468.1  transcription factor COE3a isoform X7

      UniProtKB/TrEMBL
      A0A286Y8W0, A0A8M2B2H2
      Related
      ENSDARP00000143395.2, ENSDART00000177303.2
      Conserved Domains (3) summary
      cd01175
      Location:255 → 339
      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:340 → 383
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    12. XM_009306904.4 → XP_009305179.1  transcription factor COE3a isoform X6

      UniProtKB/TrEMBL
      A0A8M3B4V8
      Conserved Domains (3) summary
      cd01175
      Location:254 → 338
      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:339 → 382
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    13. XM_005156412.5 → XP_005156469.1  transcription factor COE3a isoform X8

      UniProtKB/TrEMBL
      A0A8M2B2G9
      Conserved Domains (3) summary
      cd01175
      Location:254 → 338
      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:339 → 382
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain

    14. XM_005156415.5 → XP_005156472.1  transcription factor COE3a isoform X12

      UniProtKB/TrEMBL
      A0A8M2B3A6
      Conserved Domains (3) summary
      cd01175
      Location:254 → 338
      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:339 → 382
      COE1_HLH; Transcription factor COE1 helix-loop-helix domain
    Nucleotide Protein
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