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bed-3 Zinc finger BED domain-containing protein 3 [ Caenorhabditis elegans ]

Gene ID: 184940, updated on 2-Nov-2024

Summary

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Official Symbol
bed-3
Official Full Name
Zinc finger BED domain-containing protein 3
Primary source
WormBase:WBGene00009133
Locus tag
CELE_F25H8.6
See related
AllianceGenome:WB:WBGene00009133
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Enables RNA polymerase II transcription regulatory region sequence-specific DNA binding activity. Involved in molting cycle; regulation of cell division; and vulval cell fate specification. Predicted to be active in nucleus. Is expressed in M lineage cell; hypodermis; and vulva. [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See bed-3 in Genome Data Viewer
Location:
chromosome: IV
Exon count:
8
Sequence:
Chromosome: IV; NC_003282.8 (9916524..9921967)

Chromosome IV - NC_003282.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene ncRNA Neighboring gene Dauer Up-Regulated Neighboring gene tRNA methyltransferase 10 homolog A Neighboring gene H/ACA ribonucleoprotein complex non-core subunit NAF1

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003282.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. A large transcribed enhancer region regulates C. elegans bed-3 and the development of egg laying muscles. Goh KY, et al. Biochim Biophys Acta Gene Regul Mech, 2018 May. PMID 29481869
  2. Cellular symmetry breaking during Caenorhabditis elegans development. Munro E, et al. Cold Spring Harb Perspect Biol, 2009 Oct. PMID 20066102, Free PMC Article
  3. Direct and positive regulation of Caenorhabditis elegans bed-3 by PRDM1/BLIMP1 ortholog BLMP-1. Yang J, et al. Biochim Biophys Acta, 2015 Sep. PMID 26234645
  4. A sex-specific switch in a single glial cell patterns the apical extracellular matrix. Fung W, et al. Curr Biol, 2023 Oct 9. PMID 37708887, Free PMC Article
  5. C. elegans BED domain transcription factor BED-3 controls lineage-specific cell proliferation during organogenesis. Inoue T, et al. Dev Biol, 2010 Feb 15. PMID 20005870, Free PMC Article

See all (11) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. injection of dsRNA targeting non-coding transcripts from this region disrupted egg laying in the wild type but not in RNAi-defective mutants. Therefore, the region upstream of bed-3 is required for robust expression of bed-3 in a specific tissue, and non-coding transcripts may mediate this interaction
    Title: A large transcribed enhancer region regulates C. elegans bed-3 and the development of egg laying muscles.
  2. BLMP-1 directly and positively regulates bed-3 transcription, connecting the heterochronic pathway to regulation of vulval cell division and molting
    Title: Direct and positive regulation of Caenorhabditis elegans bed-3 by PRDM1/BLIMP1 ortholog BLMP-1.
  3. bed-3 is a key component linking the gene regulatory network controlling cell-type specification to control of cell division during vulval organogenesis
    Title: C. elegans BED domain transcription factor BED-3 controls lineage-specific cell proliferation during organogenesis.
Submit: New GeneRIF Correction

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA polymerase II transcription regulatory region sequence-specific DNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in molting cycle, collagen and cuticulin-based cuticle IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of cell division IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in regulation of cell division 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
  
involved_in vulval cell fate specification IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
Zinc finger BED domain-containing protein 3
NP_501785.1
  • Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

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

Reference assembly

Genomic

  1. NC_003282.8 Reference assembly

    Range
    9916524..9921967
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_069384.6 → NP_501785.1  Zinc finger BED domain-containing protein 3 [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_501785.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q19787
    Conserved Domains (1) summary
    pfam02892
    Location:126 → 169
    zf-BED; BED zinc finger
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q19787.1

Gene LinkOut

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