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    SDG14 SET domain protein 14 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 825347, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SDG14
    Official Full Name
    SET domain protein 14
    Primary source
    TAIR:AT3G61740
    Locus tag
    AT3G61740
    See related
    Araport:AT3G61740
    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
    ATX3; F21F14.13; SET domain protein 14
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    Genomic context

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    See SDG14 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    23
    Sequence:
    Chromosome: 3; NC_003074.8 (22850811..22857016, complement)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene ncRNA Neighboring gene reduced male fertility Neighboring gene Cytochrome b561/ferric reductase transmembrane with DOMON related domain-containing protein Neighboring gene tRNA-Ala

    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. ATX3, ATX4, and ATX5 Encode Putative H3K4 Methyltransferases and Are Critical for Plant Development. Chen LQ, et al. Plant Physiol, 2017 Jul. PMID 28550207, Free PMC Article
    2. An Arabidopsis F-box protein regulates tapetum degeneration and pollen maturation during anther development. Kim OK, et al. Planta, 2010 Jul. PMID 20458496
    3. COMPASS functions as a module of the INO80 chromatin remodeling complex to mediate histone H3K4 methylation in Arabidopsis. Shang JY, et al. Plant Cell, 2021 Oct 11. PMID 34270751, Free PMC Article
    4. CrY2H-seq: a massively multiplexed assay for deep-coverage interactome mapping. Wanamaker SA, et al. Nat Methods, 2017 Aug. PMID 28650476, Free PMC Article
    5. 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. ATX3, ATX4, and ATX5 are redundantly required for H3K4 di- and trimethylation at thousands of sites located across the genome.
      Title: ATX3, ATX4, and ATX5 Encode Putative H3K4 Methyltransferases and Are Critical for Plant Development.
    2. The observations indicate that the RMF gene encodes an F-box protein functioning in tapetum degeneration during anther development. [RMF]
      Title: An Arabidopsis F-box protein regulates tapetum degeneration and pollen maturation during anther development.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    NM_001084857.2
    NM_116039.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    acts_upstream_of_or_within epigenetic regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    part_of Set1C/COMPASS complex 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 protein 14
    NP_001078326.1
    • ATX3; FUNCTIONS IN: DNA binding, zinc ion binding; INVOLVED IN: regulation of transcription, DNA-dependent; LOCATED IN: nucleus; EXPRESSED IN: 19 plant structures; EXPRESSED DURING: 11 growth stages; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Post-SET domain (InterPro:IPR003616), PWWP (InterPro:IPR000313), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), SAND domain (InterPro:IPR000770), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: SET domain group 29 (TAIR:AT5G53430.1); Has 7727 Blast hits to 7398 proteins in 492 species: Archae - 2; Bacteria - 431; Metazoa - 3516; Fungi - 841; Plants - 1504; Viruses - 0; Other Eukaryotes - 1433 (source: NCBI BLink).
    NP_191733.3
    • SET domain protein 14 (SDG14); FUNCTIONS IN: DNA binding, zinc ion binding; INVOLVED IN: regulation of transcription, DNA-dependent; EXPRESSED IN: 19 plant structures; EXPRESSED DURING: 11 growth stages; CONTAINS InterPro DOMAIN/s: SET domain (InterPro:IPR001214), Zinc finger, PHD-type, conserved site (InterPro:IPR019786), Zinc finger, PHD-type (InterPro:IPR001965), Post-SET domain (InterPro:IPR003616), PWWP (InterPro:IPR000313), Zinc finger, FYVE/PHD-type (InterPro:IPR011011), Zinc finger, PHD-finger (InterPro:IPR019787); BEST Arabidopsis thaliana protein match is: SET domain group 29 (TAIR:AT5G53430.1); Has 7747 Blast hits to 7403 proteins in 492 species: Archae - 2; Bacteria - 431; Metazoa - 3506; Fungi - 851; Plants - 1524; Viruses - 0; Other Eukaryotes - 1433 (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
      22850811..22857016 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001084857.2 → NP_001078326.1  SET domain protein 14 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001078326.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A5S9XMY1, A0A654FJU8, F4JFG2
      Conserved Domains (5) summary
      cd05838
      Location:187 → 290
      WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...
      COG5141
      Location:518 → 765
      COG5141; PHD zinc finger-containing protein [General function prediction only]
      cd15517
      Location:365 → 415
      PHD_TCF19_like; PHD finger found in Transcription factor 19 (TCF-19), Lysine-specific demethylase KDM5A and KDM5B, and other similar proteins
      cd15663
      Location:603 → 714
      ePHD_ATX3_4_5_like; Extended PHD finger found in Arabidopsis thaliana ATX3, -4, -5, and similar proteins
      cd10518
      Location:826 → 978
      SET_SETD1-like; SET domain (including post-SET domain) found in SET domain-containing proteins (SETD1A/SETD1B), histone-lysine N-methyltransferases (KMT2A/KMT2B/KMT2C/KMT2D) and similar proteins

    2. NM_116039.4 → NP_191733.3  SET domain protein 14 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_191733.3

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      C0SVF7, Q0WU37, Q9M364
      UniProtKB/TrEMBL
      A0A5S9XMY1
      Conserved Domains (5) summary
      cd05838
      Location:187 → 290
      WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...
      smart00317
      Location:875 → 992
      SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
      cd15495
      Location:548 → 594
      PHD_ATX3_4_5_like; PHD finger found in Arabidopsis thaliana histone-lysine N-methyltransferase arabidopsis trithorax-like protein ATX3, ATX4, ATX5, and similar proteins
      cd15517
      Location:365 → 415
      PHD_TCF19_like; PHD finger found in Transcription factor 19 (TCF-19), Lysine-specific demethylase KDM5A and KDM5B, and other similar proteins
      cd15663
      Location:603 → 714
      ePHD_ATX3_4_5_like; Extended PHD finger found in Arabidopsis thaliana ATX3, -4, -5, and similar proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9M364.2

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