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Xrn2 5'-3' exoribonuclease 2 [ Rattus norvegicus (Norway rat) ]

Gene ID: 362229, updated on 2-Nov-2024

Summary

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Official Symbol
Xrn2provided by RGD
Official Full Name
5'-3' exoribonuclease 2provided by RGD
Primary source
RGD:1310218
See related
EnsemblRapid:ENSRNOG00000011785 AllianceGenome:RGD:1310218
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary
Predicted to enable RNA exonuclease activity, producing 5'-phosphomonoesters; identical protein binding activity; and nucleic acid binding activity. Involved in hippocampus development; neuron differentiation; and retina development in camera-type eye. Predicted to be located in aggresome; nucleolus; and nucleoplasm. Predicted to be active in nucleus. Biomarker of status epilepticus. Human ortholog(s) of this gene implicated in adenoid cystic carcinoma and lung cancer. Orthologous to human XRN2 (5'-3' exoribonuclease 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Spleen (RPKM 218.2), Thymus (RPKM 184.6) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Xrn2 in Genome Data Viewer
Location:
3q41
Exon count:
30
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 3 NC_086021.1 (154888558..154962519)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 3 NC_051338.1 (134436916..134509308)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 3 NC_005102.4 (141224858..141298272)

Chromosome 3 - NC_086021.1Genomic Context describing neighboring genes Neighboring gene kizuna centrosomal protein Neighboring gene transfer RNA alanine (anticodon AGC) 54 Neighboring gene ribosomal protein L18, pseudogene 9 Neighboring gene uncharacterized LOC102547081 Neighboring gene NK2 homeobox 4 Neighboring gene adenosylmethionine decarboxylase 1, pseudogene 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
  • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
  • BioProject: PRJNA238328
  • Publication: PMID 24510058
  • Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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Related articles in PubMed

  1. Pilocarpine-induced seizures trigger differential regulation of microRNA-stability related genes in rat hippocampal neurons. Kinjo ER, et al. Sci Rep, 2016 Feb 12. PMID 26869208, Free PMC Article
  2. CpG island methylation profiling in human salivary gland adenoid cystic carcinoma. Bell A, et al. Cancer, 2011 Jul 1. PMID 21692051, Free PMC Article
  3. Gene expression signatures of primary and metastatic uterine leiomyosarcoma. Davidson B, et al. Hum Pathol, 2014 Apr. PMID 24485798, Free PMC Article
  4. A possible new mechanism for the control of miRNA expression in neurons. Kinjo ER, et al. Exp Neurol, 2013 Oct. PMID 23933240
  5. Developmental and functional expression of miRNA-stability related genes in the nervous system. de Sousa É, et al. PLoS One, 2013. PMID 23700402, Free PMC Article

See all (18) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. XRN2 and PAPD4 and are highly expressed in the retina and have distinct gene expression profiles during development.
    Title: Developmental and functional expression of miRNA-stability related genes in the nervous system.
Submit: New GeneRIF Correction

Pathways from PubChem

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General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables 3'-5'-RNA exonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables 5'-3' RNA exonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables 5'-3' exonuclease activity ISO
Inferred from Sequence Orthology
more info
  
enables RNA binding IBA
Inferred from Biological aspect of Ancestor
more info
  
enables identical protein binding ISO
Inferred from Sequence Orthology
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables transcription termination site sequence-specific DNA binding ISO
Inferred from Sequence Orthology
more info
  
Process Evidence Code Pubs
involved_in RNA metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in hippocampus development IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in mRNA processing IEA
Inferred from Electronic Annotation
more info
  
involved_in neuron differentiation IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in nuclear-transcribed mRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in retina development in camera-type eye IEP
Inferred from Expression Pattern
more info
 PubMed 
involved_in spermatogenesis ISO
Inferred from Sequence Orthology
more info
  
involved_in termination of RNA polymerase II transcription ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in aggresome IEA
Inferred from Electronic Annotation
more info
  
located_in aggresome ISO
Inferred from Sequence Orthology
more info
  
located_in nucleolus ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm IEA
Inferred from Electronic Annotation
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
5'-3' exoribonuclease 2
NP_001102066.2
XP_038961403.1

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001108596.2 → NP_001102066.2  5'-3' exoribonuclease 2

    Status: VALIDATED

    Source sequence(s)
    FQ201757, JAXUCZ010000003
    UniProtKB/TrEMBL
    A0A8I5ZUU8, A6K799, D4A914
    Related
    ENSRNOP00000016350.7, ENSRNOT00000016351.9
    Conserved Domains (1) summary
    COG5049
    Location:1 → 787
    XRN1; 5'-3' exonuclease [Replication, recombination and repair]

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

  1. NC_086021.1 Reference GRCr8

    Range
    154888558..154962519
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039105475.2 → XP_038961403.1  5'-3' exoribonuclease 2 isoform X1

    UniProtKB/TrEMBL
    A0A8I5ZUU8, A0A8I6A511, A6K7A0
    Related
    ENSRNOP00000086056.1, ENSRNOT00000106395.2
    Conserved Domains (1) summary
    COG5049
    Location:1 → 751
    XRN1; 5'-3' exonuclease [Replication, recombination and repair]
Nucleotide Protein Strain
Heading Accession and Version

Gene LinkOut

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