U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    SDN2 small RNA degrading nuclease 2 [ Arabidopsis thaliana (thale cress) ]

    Gene ID: 830437, updated on 18-Sep-2024

    Summary

    Go to the top of the page Help
    Official Symbol
    SDN2
    Official Full Name
    small RNA degrading nuclease 2
    Primary source
    TAIR:AT5G05540
    Locus tag
    AT5G05540
    See related
    Araport:AT5G05540
    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
    MOP10.8; MOP10_8; small RNA degrading nuclease 2
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    See SDN2 in Genome Data Viewer
    Location:
    chromosome: 5
    Exon count:
    11
    Sequence:
    Chromosome: 5; NC_003076.8 (1636282..1638939)

    Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene Outer membrane OMP85 family protein Neighboring gene RING/U-box superfamily protein Neighboring gene sequence-specific DNA binding transcription factor Neighboring gene E3 ubiquitin ligase Neighboring gene transducin family protein / WD-40 repeat family protein

    Genomic regions, transcripts, and products

    Go to the top of the page Help
    Genomic Sequence:
    NC_003076.8

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

    Go to the top of the pageHelp

    Related articles in PubMed

    1. ARGONAUTE10 promotes the degradation of miR165/6 through the SDN1 and SDN2 exonucleases in Arabidopsis. Yu Y, et al. PLoS Biol, 2017 Feb. PMID 28231321, Free PMC Article
    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

    What's a GeneRIF?
    1. AGO10 reduces miR165/6 accumulation by enhancing its degradation by SDN1 and SDN2 in vivo.
      Title: ARGONAUTE10 promotes the degradation of miR165/6 through the SDN1 and SDN2 exonucleases in Arabidopsis.
    Submit: New GeneRIF Correction

    General gene information

    Go to the top of the page Help

    Homology

    NM_001125703.2
    NM_120636.4

    Gene Ontology Provided by TAIR

    Function Evidence Code Pubs
    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
    		  

    General protein information

    Go to the top of the page Help
    Preferred Names
    small RNA degrading nuclease 2
    NP_001119175.1
    • small RNA degrading nuclease 2 (SDN2); FUNCTIONS IN: exonuclease activity, nucleic acid binding; LOCATED IN: intracellular; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 10 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 3 (TAIR:AT5G67240.1); Has 30201 Blast hits to 17322 proteins in 780 species: Archae - 12; Bacteria - 1396; Metazoa - 17338; Fungi - 3422; Plants - 5037; Viruses - 0; Other Eukaryotes - 2996 (source: NCBI BLink).
    NP_196173.1
    • small RNA degrading nuclease 2 (SDN2); FUNCTIONS IN: exonuclease activity, nucleic acid binding; LOCATED IN: intracellular; EXPRESSED IN: 20 plant structures; EXPRESSED DURING: 10 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 3 (TAIR:AT5G67240.1); Has 1807 Blast hits to 1807 proteins in 277 species: Archae - 0; Bacteria - 0; Metazoa - 736; Fungi - 347; Plants - 385; Viruses - 0; Other Eukaryotes - 339 (source: NCBI BLink).

    NCBI Reference Sequences (RefSeq)

    Go to the top of the page Help

    NEW Try the new Transcript table

    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
      1636282..1638939
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001125703.2 → NP_001119175.1  small RNA degrading nuclease 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_001119175.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      Q9FFG1
      Conserved Domains (2) summary
      cd06145
      Location:143 → 299
      REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
      COG0847
      Location:158 → 351
      DnaQ; DNA polymerase III, epsilon subunit or related 3'-5' exonuclease [Replication, recombination and repair]

    2. NM_120636.4 → NP_196173.1  small RNA degrading nuclease 2 [Arabidopsis thaliana]

      See identical proteins and their annotated locations for NP_196173.1

      Status: REVIEWED

      UniProtKB/Swiss-Prot
      B3H5L2, Q9FFG1
      UniProtKB/TrEMBL
      A0A178UAD0, A0A5S9Y1N7
      Conserved Domains (1) summary
      cd06145
      Location:143 → 299
      REX1_like; DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    Q9FFG1.1

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials
    Tools