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ebf1a EBF transcription factor 1a [ Danio rerio (zebrafish) ]

Gene ID: 565310, updated on 27-Mar-2024

Summary

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Official Symbol
ebf1aprovided by ZNC
Official Full Name
EBF transcription factor 1aprovided by ZNC
Primary source
ZFIN:ZDB-GENE-081028-51
See related
Ensembl:ENSDARG00000099849 AllianceGenome:ZFIN:ZDB-GENE-081028-51
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
sb:eu427; si:ch73-38f1.1
Summary
Is expressed in nervous system and neural tube. Orthologous to human EBF1 (EBF transcription factor 1). [provided by Alliance of Genome Resources, Apr 2022]
Orthologs
human mouse all
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Genomic context

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Location:
chromosome: 14
Exon count:
17
Annotation release Status Assembly Chr Location
106 current GRCz11 (GCF_000002035.6) 14 NC_007125.7 (35023930..35250635)
105 previous assembly GRCz10 (GCF_000002035.5) 14 NC_007125.6 (34683579..34907533)

Chromosome 14 - NC_007125.7Genomic Context describing neighboring genes Neighboring gene interleukin 12Ba Neighboring gene ring finger protein 145a Neighboring gene clathrin interactor 1a Neighboring gene LSM11, U7 small nuclear RNA associated Neighboring gene zinc finger and BTB domain containing 3

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. Loss of runx1 function results in B cell immunodeficiency but not T cell in adult zebrafish. Chi Y, et al. Open Biol, 2018 Jul. PMID 30045885, Free PMC Article
  2. 15000 unique zebrafish EST clusters and their future use in microarray for profiling gene expression patterns during embryogenesis. Lo J, et al. Genome Res, 2003 Mar. PMID 12618376, Free PMC Article
  3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, et al. Brief Bioinform, 2011 Sep. PMID 21873635, Free PMC Article

GeneRIFs: Gene References Into Functions

Pathways from PubChem

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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 metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within regulation of DNA-templated transcription IEA
Inferred from Electronic Annotation
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 COE1-A; transcription factor COE1
Names
early B cell factor 1-A
early B cell factor 1a

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_001423970.1 → NP_001410899.1  transcription factor COE1-A isoform 1

    Status: VALIDATED

    Source sequence(s)
    AL929292, CU012046, CU019638

  2. NM_001423971.1 → NP_001410900.1  transcription factor COE1-A isoform 2

    Status: VALIDATED

    Source sequence(s)
    AL929292, CU012046, CU019638
    UniProtKB/Swiss-Prot
    A0A0R4IW26, A0A0R4IWI1, A0A0R4IWS1

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_007125.7 Reference GRCz11 Primary Assembly

    Range
    35023930..35250635
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_009291207.3 → XP_009289482.1  transcription factor COE1 isoform X1

    UniProtKB/TrEMBL
    A0A8M3AGT4
    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_017359149.2 → XP_017214638.1  transcription factor COE1 isoform X2

    UniProtKB/TrEMBL
    A0A8M6Z2R8

  3. XM_009291209.3 → XP_009289484.1  transcription factor COE1 isoform X5

    Related
    ENSDARP00000139773.2, ENSDART00000170631.2
    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_009291208.3 → XP_009289483.1  transcription factor COE1 isoform X3

    UniProtKB/TrEMBL
    A0A8M3B0H5
    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

  5. XM_017359150.2 → XP_017214639.1  transcription factor COE1 isoform X4

    UniProtKB/TrEMBL
    A0A8M6Z496

  6. XM_009291210.3 → XP_009289485.1  transcription factor COE1 isoform X6

    UniProtKB/TrEMBL
    A0A0R4IWI1
    Related
    ENSDARP00000139648.1, ENSDART00000172171.2
    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 Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A0A0R4IWI1.1 GenPept UniProtKB/Swiss-Prot:A0A0R4IWI1

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