U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    XRN2 exoribonuclease 2 [ Arabidopsis thaliana (thale cress) ]

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

    Summary

    Go to the top of the page Help
    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.
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    Go to the top of the page Help
    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

    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. 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

    Go to the top of the page Help

    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

    Go to the top of the page Help
    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)

    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
      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

    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