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10 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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XRN1
5'-3' exoribonuclease 1
Chromosome 3 · 3q23
NCBI Gene: 54464Ensembl: ENSG00000114127.12HGNC: HGNC:30654UniProt: Q8IZH2
150PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Hub GeneTumor Suppressor
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
RNA bindinghistone mRNA catabolic processnuclear-transcribed mRNA catabolic processmRNA catabolic processneurodegenerative diseasedengue diseaseatrial fibrillationsmoking initiation
✦AI Summary

XRN1 is a major 5'-3' exoribonuclease that catalyzes the processive degradation of decapped mRNAs, the terminal step of the cytoplasmic mRNA decay pathway 1. XRN1 preferentially cleaves 5' monophosphorylated RNA substrates with enhanced kinetics for G4 RNA tetraplexes, and plays specialized roles in nonsense-mediated decay, microRNA-directed decay, and replication-dependent histone mRNA degradation 1. Mechanistically, XRN1 functions within an integrated decay network through direct interactions with the deadenylase CCR4-NOT complex via its C-terminal interacting region (CIR), and with decapping factors including EDC4 and PatL1 2. The EDC4-XRN1 interaction regulates P-body dynamics to coordinate mRNA decapping with 5'-3' decay; disrupting this interaction stabilizes microRNA-targeted mRNAs and enlarges P-bodies 3. Ribosomes serve as platforms linking XRN1 recruitment to mRNA quality control pathways, including nonstop and no-go decay 4. Clinically, XRN1 functions as a tumor suppressor in osteogenic sarcoma and represents a promising therapeutic target in cancer cells dependent on retroelement decay suppression to evade viral mimicry-induced cell death 5. Loss of XRN1 impairs both mRNA levels and translational efficiency of affected transcripts 2.

Sources cited
1
XRN1 is a 5'-3' processive exoribonuclease that degrades decapped mRNAs and is involved in nonsense-mediated decay, microRNA-directed decay, and histone mRNA degradation
PMID: 22383165
2
XRN1 contains a C-terminal interacting region (CIR) that directly recruits the CCR4-NOT deadenylase complex and interacts with decapping factors EDC4 and PatL1 to coordinate decay
PMID: 31340047
3
The EDC4-XRN1 interaction regulates P-body dynamics to control mRNA decapping; disrupting this interaction stabilizes microRNA-targeted mRNAs and enlarges P-bodies
PMID: 37621215
4
XRN1 associates directly with the ribosome and functions as part of ribosome-coordinated mRNA decay platforms including nonstop and no-go decay pathways
PMID: 39921564
5
XRN1 mediates retroelement decay and represents a therapeutic target in cancer cells dependent on suppressing viral mimicry responses
PMID: 38261511
Disease Associationsⓘ20
neurodegenerative diseaseOpen Targets
0.50Moderate
dengue diseaseOpen Targets
0.37Weak
atrial fibrillationOpen Targets
0.36Weak
smoking initiationOpen Targets
0.32Weak
urinary system diseaseOpen Targets
0.23Weak
iron metabolism diseaseOpen Targets
0.23Weak
Neurodevelopmental disorderOpen Targets
0.12Weak
cancerOpen Targets
0.09Suggestive
neuromuscular diseaseOpen Targets
0.08Suggestive
osteosarcomaOpen Targets
0.08Suggestive
posterior cortical atrophyOpen Targets
0.08Suggestive
ProptosisOpen Targets
0.07Suggestive
obesityOpen Targets
0.06Suggestive
ocular hypotensionOpen Targets
0.05Suggestive
infectionOpen Targets
0.05Suggestive
cerebral atherosclerosisOpen Targets
0.05Suggestive
anencephaly 1Open Targets
0.04Suggestive
Isolated anencephaly/exencephalyOpen Targets
0.04Suggestive
neural tube defects, folate-sensitiveOpen Targets
0.04Suggestive
spina bifida-hypospadias syndromeOpen Targets
0.04Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
DICER1Protein interaction100%EXOSC6Protein interaction100%MTREXProtein interaction100%LSM2Protein interaction100%DCP1BProtein interaction99%YTHDC2Protein interaction99%
Tissue Expression6 tissues
Bone Marrow
100%
Liver
66%
Lung
62%
Ovary
55%
Brain
46%
Heart
43%
Gene Interaction Network
Click a node to explore
XRN1DICER1EXOSC6MTREXLSM2DCP1BYTHDC2
PROTEIN STRUCTURE
Preparing viewer…
PDB9E70 · 2.10 Å · X-ray
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
0.37Moderately Constrained
pLIⓘ
1.00Intolerant
Observed/Expected LoF0.30 [0.24–0.37]
RankingsWhere XRN1 stands among ~20K protein-coding genes
  • #3,028of 20,598
    Most Researched150 · top quartile
  • #1,749of 17,882
    Most Constrained (LOEUF)0.37 · top 10%
Genes detectedXRN1
Sources retrieved10 papers
Response time—
📄 Sources
10▼
1
The roles of the exoribonucleases DIS3L2 and XRN1 in human disease.
PMID: 27911720
Biochem Soc Trans · 2016
1.00
2
The ribosome as a platform to coordinate mRNA decay.
PMID: 39921564
Nucleic Acids Res · 2025
0.90
3
The EDC4-XRN1 interaction controls P-body dynamics to link mRNA decapping with decay.
PMID: 37621215
EMBO J · 2023
0.80
4
Integrative RNA profiling of TBEV-infected neurons and astrocytes reveals potential pathogenic effectors.
PMID: 35685361
Comput Struct Biotechnol J · 2022
0.70
5
The 5' → 3' exoribonuclease XRN1/Pacman and its functions in cellular processes and development.
PMID: 22383165
Wiley Interdiscip Rev RNA · 2012
0.60