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

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

Summary

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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
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Genomic context

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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

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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. 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

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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

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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)

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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
    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

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