U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    CLE40 CLAVATA3/ESR-RELATED 40 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 831139, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    CLE40
    Official Full Name
    CLAVATA3/ESR-RELATED 40
    Primary source
    TAIR:AT5G12990
    Locus tag
    AT5G12990
    See related
    Araport:AT5G12990
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Arabidopsis thaliana (ecotype: Columbia)
    Lineage
    Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
    Also known as
    CLAVATA3/ESR-RELATED 40; T24H18.160; T24H18_160
    Summary
    Member of a large family of putative ligands homologous to the Clavata3 gene. Consists of a single exon.
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See CLE40 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    3
    Sequence:
    Chromosome: 5; NC_003076.8 (4109234..4109784, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene proline-tRNA ligase (DUF1680) Neighboring gene Calcium-dependent lipid-binding (CaLB domain) plant phosphoribosyltransferase family protein Neighboring gene Cell differentiation, Rcd1-like protein Neighboring gene glucan synthase-like 12 Neighboring gene RNA helicase family protein

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. CLE40 Signaling Regulates Root Stem Cell Fate. Berckmans B, et al. Plant Physiol, 2020 Apr. PMID 31806736, Free PMC Article
    2. Loss of CLE40, a protein functionally equivalent to the stem cell restricting signal CLV3, enhances root waving in Arabidopsis. Hobe M, et al. Dev Genes Evol, 2003 Aug. PMID 12743822
    3. Mathematical modelling of WOX5- and CLE40-mediated columella stem cell homeostasis in Arabidopsis. Richards S, et al. J Exp Bot, 2015 Aug. PMID 26019259, Free PMC Article
    4. Control of Arabidopsis shoot stem cell homeostasis by two antagonistic CLE peptide signalling pathways. Schlegel J, et al. Elife, 2021 Oct 13. PMID 34643181, Free PMC Article
    5. The 14-amino acid CLV3, CLE19, and CLE40 peptides trigger consumption of the root meristem in Arabidopsis through a CLAVATA2-dependent pathway. Fiers M, et al. Plant Cell, 2005 Sep. PMID 16055633, Free PMC Article

    See all (9) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Control of Arabidopsis shoot stem cell homeostasis by two antagonistic CLE peptide signalling pathways.
      Title: Control of Arabidopsis shoot stem cell homeostasis by two antagonistic CLE peptide signalling pathways.
    2. CLE40 Signaling Regulates Root Stem Cell Fate.
      Title: CLE40 Signaling Regulates Root Stem Cell Fate.
    3. WOX5 signals from the quiescent centre to promote columella stem cell (CSC) fate, while CLE40 is secreted from the differentiated columella cells to promote differentiation.
      Title: Mathematical modelling of WOX5- and CLE40-mediated columella stem cell homeostasis in Arabidopsis.
    4. Data suggest that CLV3, CLE19 and CLE40 peptides represent the major active domain of the CLE proteins, which interact with an unknown cell identity-maintaining CLAVATA2 receptor complex in roots, leading to consumption of the root meristem.
      Title: The 14-amino acid CLV3, CLE19, and CLE40 peptides trigger consumption of the root meristem in Arabidopsis through a CLAVATA2-dependent pathway.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Homology

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables receptor serine/threonine kinase binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within cell fate specification IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cell-cell signaling involved in cell fate commitment ISS
    Inferred from Sequence or Structural Similarity
    more info
    		  
    involved_in maintenance of root meristem identity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in phloem development IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in regulation of cell differentiation IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in root development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in apoplast ISM
    Inferred from Sequence Model
    more info
    		 PubMed 

    General protein information

    Go to the top of the page Help
    Preferred Names
    CLAVATA3/ESR-RELATED 40
    NP_196803.1
    • CLAVATA3/ESR-RELATED 40 (CLE40); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    Genome Annotation

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

    Reference assembly

    Genomic

    1. NC_003076.8 Reference assembly

      Range
      4109234..4109784 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_121302.2 → NP_196803.1  CLAVATA3/ESR-RELATED 40 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196803.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LXU0
      UniProtKB/TrEMBL
      A0A5S9Y481, A0A654G0L0
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LXU0.1

    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