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    SDN3 small RNA degrading nuclease 3 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 836859, updated on 18-Sep-2024

    Summary

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    Official Symbol
    SDN3
    Official Full Name
    small RNA degrading nuclease 3
    Primary source
    TAIR:AT5G67240
    Locus tag
    AT5G67240
    See related
    Araport:AT5G67240
    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
    K21H1.20; K21H1_20; small RNA degrading nuclease 3
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    Genomic context

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    See SDN3 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    15
    Sequence:
    Chromosome: 5; NC_003076.8 (26824236..26828318, complement)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene IRREGULAR XYLEM protein (DUF579) Neighboring gene FMN-linked oxidoreductases superfamily protein Neighboring gene ncRNA Neighboring gene Nucleotide-diphospho-sugar transferases superfamily protein Neighboring gene uncharacterized protein Neighboring gene SKP1/ASK1-interacting protein 2

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Purification of a plant mediator from Arabidopsis thaliana identifies PFT1 as the Med25 subunit. Bäckström S, et al. Mol Cell, 2007 Jun 8. PMID 17560376
    2. Sequence and analysis of chromosome 5 of the plant Arabidopsis thaliana. Tabata S, et al. Nature, 2000 Dec 14. PMID 11130714

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    NM_001345817.1
    NM_001345818.1
    NM_001345819.1

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    enables exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Component Evidence Code Pubs
    located_in cytoplasm ISM
    Inferred from Sequence Model
    more info
    		  
    part_of mediator 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
    small RNA degrading nuclease 3
    NP_001318895.1
    • small RNA degrading nuclease 3 (SDN3); FUNCTIONS IN: exonuclease activity, nucleic acid binding; LOCATED IN: intracellular; EXPRESSED IN: 22 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Exonuclease (InterPro:IPR006055), Polynucleotidyl transferase, ribonuclease H fold (InterPro:IPR012337), Exonuclease, RNase T/DNA polymerase III (InterPro:IPR013520); BEST Arabidopsis thaliana protein match is: small RNA degrading nuclease 1 (TAIR:AT3G50100.1).
    NP_201525.2
    • small RNA degrading nuclease 3 (SDN3); FUNCTIONS IN: exonuclease activity, nucleic acid binding; LOCATED IN: intracellular; EXPRESSED IN: 23 plant structures; EXPRESSED DURING: 13 growth stages; CONTAINS InterPro DOMAIN/s: Exonuclease (InterPro:IPR006055), Polynucleotidyl transferase, ribonuclease H fold (InterPro:IPR012337), Exonuclease, RNase T/DNA polymerase III (InterPro:IPR013520); BEST Arabidopsis thaliana protein match is: small RNA degrading nuclease 1 (TAIR:AT3G50100.1); Has 2616 Blast hits to 2408 proteins in 300 species: Archae - 3; Bacteria - 109; Metazoa - 996; Fungi - 649; Plants - 362; Viruses - 0; Other Eukaryotes - 497 (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_003076.8 Reference assembly

      Range
      26824236..26828318 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_126124.4 → NP_201525.2  small RNA degrading nuclease 3 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_201525.2

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q8RXK2, Q9FH89
      UniProtKB/TrEMBL
      A0A178UGK8, A0A5S9YIJ1, A0A7G2FNB2
      Conserved Domains (1) summary
      cd06145
      Location:146 → 297
      REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins

    2. NM_001345817.1 → NP_001318895.1  small RNA degrading nuclease 3 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      F4K3N3

    3. NM_001345818.1 → NP_001331564.1  small RNA degrading nuclease 3 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BE97, A0A7G2FNB2

    4. NM_001345819.1 → NP_001331563.1  small RNA degrading nuclease 3 [Arabidopsis thaliana]

      Status: REVIEWED

      UniProtKB/TrEMBL
      A0A1P8BE91, A0A7G2FNB2
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q8RXK2.1

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