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SDE5 silencing defective 5 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 820778, updated on 18-Sep-2024

Summary

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Official Symbol
SDE5
Official Full Name
silencing defective 5
Primary source
TAIR:AT3G15390
Locus tag
AT3G15390
See related
Araport:AT3G15390
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
silencing defective 5
Summary
Encodes a novel protein that is similar to PRL1 interacting factor and is involved in virus induced silencing.
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Genomic context

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See SDE5 in Genome Data Viewer
Location:
chromosome: 3
Exon count:
13
Sequence:
Chromosome: 3; NC_003074.8 (5196522..5200394, complement)

Chromosome 3 - NC_003074.8Genomic Context describing neighboring genes Neighboring gene thioredoxin M-type 4 Neighboring gene expansin 12 Neighboring gene Plasma-membrane choline transporter family protein Neighboring gene HrpN-interacting protein from malus protein Neighboring gene anther 20

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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GeneRIFs: Gene References Into Functions

General gene information

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NM_001202971.2
NM_001338166.1
NM_112407.5

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables molecular_function ND
No biological Data available
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within ta-siRNA processing TAS
Traceable Author Statement
more info
 PubMed 
Component Evidence Code Pubs
located_in chloroplast ISM
Inferred from Sequence Model
more info
  
located_in cytosol HDA PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
silencing defective 5
NP_001189900.1
  • silencing defective 5 (SDE5); FUNCTIONS IN: molecular_function unknown; INVOLVED IN: production of ta-siRNAs involved in RNA interference; LOCATED IN: cellular_component unknown; EXPRESSED IN: 21 plant structures; EXPRESSED DURING: 12 growth stages; CONTAINS InterPro DOMAIN/s: Domain of unknown function DUF1771 (InterPro:IPR013899); BEST Arabidopsis thaliana protein match is: smr (Small MutS Related) domain-containing protein (TAIR:AT5G58720.1).
NP_188158.4
  • silencing defective 5 (SDE5); CONTAINS InterPro DOMAIN/s: Domain of unknown function DUF1771 (InterPro:IPR013899); BEST Arabidopsis thaliana protein match is: smr (Small MutS Related) domain-containing protein (TAIR:AT5G58720.1); Has 92 Blast hits to 92 proteins in 30 species: Archae - 0; Bacteria - 4; Metazoa - 16; Fungi - 4; Plants - 47; Viruses - 0; Other Eukaryotes - 21 (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
    5196522..5200394 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001202971.2 → NP_001189900.1  silencing defective 5 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001189900.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178V8M2, A0A178V9A6, A0A384LHF2, F4IYR0
    Conserved Domains (1) summary
    pfam08590
    Location:140 → 196
    DUF1771; Domain of unknown function (DUF1771)

  2. NM_112407.5 → NP_188158.4  silencing defective 5 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_188158.4

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q9LUQ3, Q9M7X0
    UniProtKB/TrEMBL
    A0A5S9XCD0, A0A654F7F4
    Conserved Domains (1) summary
    pfam08590
    Location:331 → 390
    DUF1771; Domain of unknown function (DUF1771)

  3. NM_001338166.1 → NP_001327652.1  silencing defective 5 [Arabidopsis thaliana]

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A178V8M2, A0A1I9LSZ6
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9LUQ3.1

Gene LinkOut

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