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    FDM3 XH/XS domain-containing protein [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 820435, updated on 18-Sep-2024

    Summary

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    Official Symbol
    FDM3
    Official Full Name
    XH/XS domain-containing protein
    Primary source
    TAIR:AT3G12550
    Locus tag
    AT3G12550
    See related
    Araport:AT3G12550
    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
    factor of DNA methylation 3
    Summary
    Belongs to a subgroup of SGS3-like proteins that act redundantly in RNA-directed DNA methylation: AT1G15910 (FDM1), AT4G00380 (FDM2), AT3G12550 (FDM3), AT1G13790 (FDM4), AT1G80790 (FDM5).
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    Genomic context

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    See FDM3 in Genome Data Viewer
    Location:
    chromosome: 3
    Exon count:
    9
    Sequence:
    Chromosome: 3; NC_003074.8 (3978005..3981881)

    Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene PSF2 Neighboring gene ternary complex factor MIP1 leucine-zipper protein (Protein of unknown function, DUF547) Neighboring gene Bifunctional inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein Neighboring gene TRF-like 9 Neighboring gene FYD Neighboring gene heat shock protein 70

    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. A subgroup of SGS3-like proteins act redundantly in RNA-directed DNA methylation. Xie M, et al. Nucleic Acids Res, 2012 May. PMID 22302148, Free PMC Article
    2. 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

    General gene information

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    NM_001337998.1
    NM_001337999.1
    NM_001338000.1
    NM_112090.6

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    involved_in gene silencing by siRNA-directed DNA methylation IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within gene silencing by siRNA-directed DNA methylation IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nucleus ISM
    Inferred from Sequence Model
    more info
    		  

    General protein information

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    Preferred Names
    XH/XS domain-containing protein
    NP_001189872.1
    • XH/XS domain-containing protein; FUNCTIONS IN: molecular_function unknown; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 10 growth stages; CONTAINS InterPro DOMAIN/s: Domain of unknown function XS (InterPro:IPR005380), Domain of unknown function XH (InterPro:IPR005379), Domain of unknown function, putative Zinc finger, XS/XH (InterPro:IPR005381); BEST Arabidopsis thaliana protein match is: XH/XS domain-containing protein (TAIR:AT3G48670.2).
    NP_187861.2
    • XH/XS domain-containing protein; CONTAINS InterPro DOMAIN/s: Domain of unknown function XS (InterPro:IPR005380), Domain of unknown function XH (InterPro:IPR005379), Domain of unknown function, putative Zinc finger, XS/XH (InterPro:IPR005381); BEST Arabidopsis thaliana protein match is: XH/XS domain-containing protein (TAIR:AT3G48670.2); Has 27730 Blast hits to 18970 proteins in 1489 species: Archae - 327; Bacteria - 3496; Metazoa - 13128; Fungi - 1662; Plants - 1039; Viruses - 83; Other Eukaryotes - 7995 (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
      3978005..3981881
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001202943.2 → NP_001189872.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001189872.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9C7B0, Q9LHB1
      UniProtKB/TrEMBL
      A0A654F7J1
      Conserved Domains (5) summary
      pfam03470
      Location:32 → 75
      zf-XS; XS zinc finger domain
      pfam03468
      Location:118 → 228
      XS; XS domain
      pfam03469
      Location:504 → 634
      XH; XH domain
      cl09914
      Location:295 → 424
      PHA_synth_III_E; Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
      cl09930
      Location:385 → 520
      RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.

    2. NM_112090.6 → NP_187861.2  XH/XS domain-containing protein [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_187861.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9C7B0, Q9LHB1
      UniProtKB/TrEMBL
      A0A654F7J1
      Conserved Domains (5) summary
      pfam03470
      Location:32 → 75
      zf-XS; XS zinc finger domain
      pfam03468
      Location:118 → 228
      XS; XS domain
      pfam03469
      Location:504 → 634
      XH; XH domain
      cl09914
      Location:295 → 424
      PHA_synth_III_E; Poly(R)-hydroxyalkanoic acid synthase subunit (PHA_synth_III_E)
      cl09930
      Location:385 → 520
      RPA_2b-aaRSs_OBF_like; Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold.

    3. NM_001337999.1 → NP_001326248.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9C7B0, Q9LHB1
      UniProtKB/TrEMBL
      A0A654F7J1

    4. NM_001337998.1 → NP_001326249.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LNP6, A0A654F7J1

    5. NM_001338000.1 → NP_001326247.1  XH/XS domain-containing protein [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1I9LNP4, A0A654F7J1
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9LHB1.1

    Gene LinkOut

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