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

Summary

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

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_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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

General gene information

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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

EC 3.1.13.-

XP_038961403.1

EC 3.1.13.-

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)

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

NC_086021.1 Reference GRCr8

Range

154888558..154962519

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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]