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CLF SET domain-containing protein [ Arabidopsis thaliana (thale cress) ]

Gene ID: 816870, updated on 18-Sep-2024

Summary

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Official Symbol
CLF
Official Full Name
SET domain-containing protein
Primary source
TAIR:AT2G23380
Locus tag
AT2G23380
See related
Araport:AT2G23380
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
CURLY LEAF; F26B6.3; F26B6_3; ICU1; INCURVATA 1; SDG1; SET1; SETDOMAIN 1; SETDOMAIN GROUP 1
Summary
Similar to the product of the Polycomb-group gene Enhancer of zeste. Required for stable repression of AG and AP3. Putative role in cell fate determination. Involved in the control of leaf morphogenesis. mutants exhibit curled, involute leaves. AGAMOUS and APETALA3 are ectopically expressed in the mutant.
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Genomic context

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See CLF in Genome Data Viewer
Location:
chromosome: 2
Exon count:
17
Sequence:
Chromosome: 2; NC_003071.7 (9955092..9960386)

Chromosome 2 - NC_003071.7Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene poly(A) binding protein 4 Neighboring gene filament-like protein (DUF869) Neighboring gene cyclin delta-3 Neighboring gene acyl-CoA Neighboring gene Undecaprenyl pyrophosphate synthetase family protein Neighboring gene cis-prenyltransferase

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003071.7

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Dissecting the control of shoot development in grapevine: genetics and genomics identify potential regulators. Guillaumie S, et al. BMC Plant Biol, 2020 Jan 29. PMID 31996141, Free PMC Article
  2. CURLY LEAF modulates apoplast liquid water status in Arabidopsis leaves. Wu J, et al. Plant Physiol, 2023 Aug 31. PMID 37300539
  3. Silencing by plant Polycomb-group genes requires dispersed trimethylation of histone H3 at lysine 27. Schubert D, et al. EMBO J, 2006 Oct 4. PMID 16957776, Free PMC Article
  4. CURLY LEAF Regulates Gene Sets Coordinating Seed Size and Lipid Biosynthesis. Liu J, et al. Plant Physiol, 2016 May. PMID 26945048, Free PMC Article
  5. Polycomb-group histone methyltransferase CLF is required for proper somatic recombination in Arabidopsis. Chen N, et al. J Integr Plant Biol, 2014 Jun. PMID 24393343

See all (44) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. CURLY LEAF modulates apoplast liquid water status in Arabidopsis leaves.
    Title: CURLY LEAF modulates apoplast liquid water status in Arabidopsis leaves.
  2. Arabidopsis CURLY LEAF functions in leaf immunity against fungal pathogens by concomitantly repressing SEPALLATA3 and activating ORA59.
    Title: Arabidopsis CURLY LEAF functions in leaf immunity against fungal pathogens by concomitantly repressing SEPALLATA3 and activating ORA59.
  3. The complexity of PRC2 catalysts CLF and SWN in plants.
    Title: The complexity of PRC2 catalysts CLF and SWN in plants.
  4. CURLY LEAF Regulates MicroRNA Activity by Controlling ARGONAUTE 1 Degradation in Plants.
    Title: CURLY LEAF Regulates MicroRNA Activity by Controlling ARGONAUTE 1 Degradation in Plants.
  5. It s reported that the RNA binding protein FCA interacts with the PRC2 subunit CURLY LEAF (CLF) and binds nascent COOLAIR transcripts to allow deposition of H3K27me3 at FLC. [CLF]
    Title: PRC2 recruitment and H3K27me3 deposition at FLC require FCA binding of COOLAIR.
  6. The phenotype of the dwarfed grapevine plants was similar to that of clf mutants of A. thaliana and orthologues of the known targets of CLF in A. thaliana were differentially expressed in the dwarfed plants. This suggests that CLF, a major developmental regulator in A. thaliana, also controls shoot development in grapevine
    Title: Dissecting the control of shoot development in grapevine: genetics and genomics identify potential regulators.
  7. AG-incRNA4 can associate with CLF to repress AG expression in leaf tissues through histone H3 lysine 27methylation 3-mediated repression and to autoregulate its own expression level.
    Title: A noncoding RNA transcribed from the AGAMOUS (AG) second intron binds to CURLY LEAF and represses AG expression in leaves.
  8. Ultraviolet-B light downregulates the expression of MSI1 and CLF, two of the components of the polycomb repressive complex 2, which in consequence drives a decrease in H3K27me3 histone methylation of MIR156 and FLC genes. [CLF]
    Title: UV-B radiation delays flowering time through changes in the PRC2 complex activity and miR156 levels in Arabidopsis thaliana.
  9. A novel mechanism of the CLF-mediated epigenetic regulation of FT protein activation in photoperiod-induced flowering.
    Title: Temporal-Specific Interaction of NF-YC and CURLY LEAF during the Floral Transition Regulates Flowering.
  10. CLF represses a large number of genes in embryos at the mature-green stage.CLF regulates gene sets coordinating seed size and lipid biosynthesis.
    Title: CURLY LEAF Regulates Gene Sets Coordinating Seed Size and Lipid Biosynthesis.
Submit: New GeneRIF Correction See all GeneRIFs (20)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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NM_001335847.1
NM_127902.6

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables histone H3K27 trimethyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H3K27 trimethyltransferase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables single-stranded RNA binding IDA
Inferred from Direct Assay
more info
 PubMed 
enables transcription corepressor binding IPI
Inferred from Physical Interaction
more info
 PubMed 
Process Evidence Code Pubs
acts_upstream_of_or_within DNA-mediated transformation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within callus formation IGI
Inferred from Genetic Interaction
more info
 PubMed 
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within epigenetic programming in the endosperm IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within leaf morphogenesis IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of gene expression, epigenetic IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of DNA-templated transcription IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in regulation of flower development IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within regulation of leaf senescence IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within response to abscisic acid IGI
Inferred from Genetic Interaction
more info
 PubMed 
acts_upstream_of_or_within transcription initiation-coupled chromatin remodeling IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within vegetative to reproductive phase transition of meristem IMP
Inferred from Mutant Phenotype
more info
 PubMed 
acts_upstream_of_or_within vernalization response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
part_of PcG protein complex IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
SET domain-containing protein
NP_179919.1
  • CURLY LEAF (CLF); FUNCTIONS IN: protein binding, sequence-specific DNA binding transcription factor activity; INVOLVED IN: in 7 processes; LOCATED IN: chloroplast; EXPRESSED IN: 15 plant structures; EXPRESSED DURING: 7 growth stages; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214); BEST Arabidopsis thaliana protein match is: SET domain-containing protein (TAIR:AT4G02020.1); Has 5951 Blast hits to 5285 proteins in 534 species: Archae - 0; Bacteria - 530; Metazoa - 2584; Fungi - 730; Plants - 989; Viruses - 16; Other Eukaryotes - 1102 (source: NCBI BLink).

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_003071.7 Reference assembly

    Range
    9955092..9960386
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_127902.6 → NP_179919.1  SET domain-containing protein [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_179919.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    O80455, P93831
    UniProtKB/TrEMBL
    A0A5S9X0G8
    Conserved Domains (2) summary
    smart00317
    Location:759 → 869
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
    pfam03638
    Location:689 → 720
    TCR; Tesmin/TSO1-like CXC domain, cysteine-rich domain

  2. NM_001335847.1 → NP_001324816.1  SET domain-containing protein [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A1P8B187
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P93831.2

Gene LinkOut

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