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XRN2 exoribonuclease 2 [ Arabidopsis thaliana (thale cress) ]

Gene ID: 834261, updated on 18-Sep-2024

Summary

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Official Symbol
XRN2
Official Full Name
exoribonuclease 2
Primary source
TAIR:AT5G42540
Locus tag
AT5G42540
See related
Araport:AT5G42540
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
AtXRN2; exoribonuclease 2; EXORIBONUCLEASE 2; K16E1.2; K16E1_2
Summary
Encodes a protein with similarity to yeast 5'-3'exonucleases and can functionally complement the yeast mutations. In Arabidopsis XRN2 acts as a suppressor of posttranscriptional gene silencing.
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Genomic context

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See XRN2 in Genome Data Viewer
Location:
chromosome: 5
Exon count:
22
Sequence:
Chromosome: 5; NC_003076.8 (17007366..17014846)

Chromosome 5 - NC_003076.8Genomic Context describing neighboring genes Neighboring gene basic pentacysteine 6 Neighboring gene uncharacterized protein Neighboring gene Abscisic acid-responsive (TB2/DP1, HVA22) family protein Neighboring gene inhibitor/lipid-transfer protein/seed storage 2S albumin superfamily protein (DUF784)

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. Arabidopsis thaliana XRN2 is required for primary cleavage in the pre-ribosomal RNA. Zakrzewska-Placzek M, et al. Nucleic Acids Res, 2010 Jul. PMID 20338880, Free PMC Article
  2. RNA Polymerase II Read-Through Promotes Expression of Neighboring Genes in SAL1-PAP-XRN Retrograde Signaling. Crisp PA, et al. Plant Physiol, 2018 Dec. PMID 30301775, Free PMC Article
  3. Arabidopsis FIERY1, XRN2, and XRN3 are endogenous RNA silencing suppressors. Gy I, et al. Plant Cell, 2007 Nov. PMID 17993620, Free PMC Article
  4. Novel features of the XRN-family in Arabidopsis: evidence that AtXRN4, one of several orthologs of nuclear Xrn2p/Rat1p, functions in the cytoplasm. Kastenmayer JP, et al. Proc Natl Acad Sci U S A, 2000 Dec 5. PMID 11106401, Free PMC Article
  5. 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. XRN2 expression affects RNA polymerase II termination.
    Title: RNA Polymerase II Read-Through Promotes Expression of Neighboring Genes in SAL1-PAP-XRN Retrograde Signaling.
  2. AtXRN2 has a role in ribosomal RNA processing.
    Title: Arabidopsis thaliana XRN2 is required for primary cleavage in the pre-ribosomal RNA.
  3. The nuclear exoribonucleases XRN2 and XRN3 the nucleotidase/phosphatase FIERY1 are endogenous posttranscriptional gene silencing suppressors.
    Title: Arabidopsis FIERY1, XRN2, and XRN3 are endogenous RNA silencing suppressors.
Submit: New GeneRIF Correction

General gene information

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Homology

NM_001203521.1
NM_123619.4

Gene Ontology Provided by TAIR

Function Evidence Code Pubs
enables 5'-3' RNA exonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables 5'-3' RNA exonuclease activity IGI
Inferred from Genetic Interaction
more info
 PubMed 
enables nucleic acid binding IEA
Inferred from Electronic Annotation
more info
  
enables zinc ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
acts_upstream_of_or_within miRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in miRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of post-transcriptional gene silencing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in nuclear polyadenylation-dependent rRNA catabolic process IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in rRNA 5'-end processing IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in nucleus IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleus IMP
Inferred from Mutant Phenotype
more info
 PubMed 
located_in nucleus ISM
Inferred from Sequence Model
more info
  

General protein information

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Preferred Names
exoribonuclease 2
NP_001190450.1
  • exoribonuclease 2 (XRN2); CONTAINS InterPro DOMAIN/s: 5'-3' exoribonuclease 2 (InterPro:IPR017151), Zinc finger, CCHC-type (InterPro:IPR001878), Putative 5-3 exonuclease (InterPro:IPR004859); BEST Arabidopsis thaliana protein match is: 5'-3' exoribonuclease 3 (TAIR:AT1G75660.1).
NP_199069.1
  • exoribonuclease 2 (XRN2); CONTAINS InterPro DOMAIN/s: 5'-3' exoribonuclease 2 (InterPro:IPR017151), Zinc finger, CCHC-type (InterPro:IPR001878), Putative 5-3 exonuclease (InterPro:IPR004859); BEST Arabidopsis thaliana protein match is: 5'-3' exoribonuclease 3 (TAIR:AT1G75660.1); 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
    17007366..17014846
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_123619.4 → NP_199069.1  exoribonuclease 2 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_199069.1

    Status: REVIEWED

    UniProtKB/Swiss-Prot
    Q56WR6, Q570J7, Q9AST0, Q9FH70, Q9FH71, Q9FQ02
    UniProtKB/TrEMBL
    A0A5S9YAV5, A0A654G7T5
    Conserved Domains (1) summary
    COG5049
    Location:1 → 720
    XRN1; 5'-3' exonuclease [Replication, recombination and repair]

  2. NM_001203521.1 → NP_001190450.1  exoribonuclease 2 [Arabidopsis thaliana]

    See identical proteins and their annotated locations for NP_001190450.1

    Status: REVIEWED

    UniProtKB/TrEMBL
    A0A654G7T5, F4K1L3
    Conserved Domains (3) summary
    smart00343
    Location:265 → 279
    ZnF_C2HC; zinc finger
    COG5049
    Location:1 → 720
    XRN1; 5'-3' exonuclease [Replication, recombination and repair]
    pfam03159
    Location:1 → 255
    XRN_N; XRN 5'-3' exonuclease N-terminus
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q9FQ02.1

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