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    LDL2 LSD1-like2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820577, updated on 18-Sep-2024

    Summary

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    Official Symbol
    LDL2
    Official Full Name
    LSD1-like2
    Primary source
    TAIR:AT3G13682
    Locus tag
    AT3G13682
    See related
    Araport:AT3G13682
    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
    LSD1-like2
    Summary
    Encodes a homolog of human Lysine-Specific Demethylase1. Involved in H3K4 methylation of target genes including the flowering loci FLC and FWA.
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    Genomic context

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    See LDL2 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    2
    Sequence:
    Chromosome: 3; NC_003074.8 (4478873..4481767, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene uncharacterized protein Neighboring gene uncharacterized protein Neighboring gene F-box and associated interaction domains-containing protein Neighboring gene kinase with adenine nucleotide alpha hydrolases-like domain-containing protein Neighboring gene RNA-binding (RRM/RBD/RNP motifs) family protein Neighboring gene prenylated RAB acceptor 1.F4

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003074.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. The Arabidopsis LDL1/2-HDA6 histone modification complex is functionally associated with CCA1/LHY in regulation of circadian clock genes. Hung FY, et al. Nucleic Acids Res, 2018 Nov 16. PMID 30124938, Free PMC Article
    2. Arabidopsis relatives of the human lysine-specific Demethylase1 repress the expression of FWA and FLOWERING LOCUS C and thus promote the floral transition. Jiang D, et al. Plant Cell, 2007 Oct. PMID 17921315, Free PMC Article
    3. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    4. Sequence and analysis of chromosome 3 of the plant Arabidopsis thaliana. Salanoubat M, et al. Nature, 2000 Dec 14. PMID 11130713

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Histone demethylases LDL1 and LDL2 interact with the histone deacetylase 6 ( HDA6) and co-regulate TOC1 by histone demetylation and deacetylaion.
      Title: The Arabidopsis LDL1/2-HDA6 histone modification complex is functionally associated with CCA1/LHY in regulation of circadian clock genes.
    Submit: New GeneRIF Correction

    Pathways from PubChem

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    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    NM_112218.2

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables histone H3K4 methyltransferase activity IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in biological_process ND
    No biological Data available
    more info
    		  
    Component Evidence Code Pubs
    located_in mitochondrion ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    LSD1-like2
    NP_187981.1
    • LSD1-like2 (LDL2); CONTAINS InterPro DOMAIN/s: Amine oxidase (InterPro:IPR002937), SWIRM (InterPro:IPR007526); BEST Arabidopsis thaliana protein match is: LSD1-like 1 (TAIR:AT1G62830.1); Has 5703 Blast hits to 5142 proteins in 914 species: Archae - 48; Bacteria - 2121; Metazoa - 1514; Fungi - 564; Plants - 617; Viruses - 0; Other Eukaryotes - 839 (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_003074.8 Reference assembly

      Range
      4478873..4481767 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_112218.2 → NP_187981.1  LSD1-like2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_187981.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9LID0
      UniProtKB/TrEMBL
      A0A178V6Y9, A0A5S9XCC8, A0A654FGZ8
      Conserved Domains (1) summary
      PLN02529
      Location:1 → 738
      PLN02529; lysine-specific histone demethylase 1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LID0.1

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