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25 sources retrieved · Most recent: April 2026 · Index updated 14 days ago
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ALYREF
Aly/REF export factor
Chromosome 17 · 17q25.3
NCBI Gene: 10189Ensembl: ENSG00000183684.8HGNC: HGNC:19071UniProt: E9PB61
295PubMed Papers
20Diseases
0Drugs
0Pathogenic Variants
FUNCTIONAL ROLE
Highly ConstrainedHub GeneTransporter
RESEARCH IMPACT
Trending
DATA QUALITY
✓ Experimental GO Evidence✓ Swiss-Prot Reviewed
catalytic step 2 spliceosometranscription export complexextracellular exosomeRNA bindingneurodegenerative diseasedengue diseasenon-small cell lung carcinomaneoplasm
✦AI Summary

ALYREF (Aly/REF export factor) is a critical component of the TREX complex that functions as an mRNA export adaptor and 5-methylcytosine (m5C) reader protein. ALYREF recognizes mRNPs through multivalent interactions with exon junction complexes and facilitates mRNA nuclear export by coating and compacting mRNPs into globular structures 1. As an m5C reader, ALYREF specifically binds to m5C-modified mRNAs, enhancing their stability and export from the nucleus 2. This mechanism is conserved across multiple cancer types, where ALYREF binding to m5C sites in 3'-untranslated regions stabilizes oncogenic mRNAs including PKM2 in bladder cancer 3, NDRG1 in cervical cancer 4, CDC42 in glioma 5, and ACC1 in prostate cancer 6. The protein undergoes regulated cytoplasmic-nuclear shuttling, which is disrupted by chemotherapeutic agents like paclitaxel, but can be restored through RNF31-mediated ubiquitination, contributing to drug resistance in triple-negative breast cancer 7. ALYREF also stabilizes long non-coding RNAs such as MALAT1 through m5C recognition, promoting sorafenib resistance in hepatocellular carcinoma 8. These findings establish ALYREF as a key regulator of mRNA metabolism with significant implications for cancer progression and therapeutic resistance.

Sources cited
1
ALYREF recognizes mRNPs through multivalent interactions with exon junction complexes and facilitates mRNA compaction into globular structures
PMID: 37020021
2
ALYREF specifically recognizes m5C-modified mRNAs and promotes mRNA export from nucleus
PMID: 28418038
3
ALYREF stabilizes PKM2 mRNA through binding to m5C sites in 3'-UTR in bladder cancer
PMID: 33991457
4
ALYREF binds to m5C-labeled NDRG1 mRNA and enhances its stability in cervical cancer
PMID: 38970106
5
ALYREF binding to CDC42 mRNA is regulated by NSUN4-mediated m5C modifications in glioma
PMID: 38876383
6
ALYREF binds to m5C-modified ACC1 mRNA to enhance its stability and nuclear export in prostate cancer
PMID: 37845385
7
RNF31-mediated ubiquitination facilitates ALYREF nuclear transportation and contributes to paclitaxel resistance
PMID: 39915011
8
ALYREF contributes to MALAT1 RNA stability through m5C recognition in hepatocellular carcinoma
PMID: 39657434
Disease Associationsⓘ20
neurodegenerative diseaseOpen Targets
0.54Moderate
dengue diseaseOpen Targets
0.37Weak
non-small cell lung carcinomaOpen Targets
0.10Weak
neoplasmOpen Targets
0.10Suggestive
cancerOpen Targets
0.09Suggestive
ovarian cancerOpen Targets
0.09Suggestive
triple-negative breast cancerOpen Targets
0.09Suggestive
hepatocellular carcinomaOpen Targets
0.09Suggestive
colorectal carcinomaOpen Targets
0.08Suggestive
nasopharyngeal carcinomaOpen Targets
0.08Suggestive
neuroblastomaOpen Targets
0.08Suggestive
glioblastoma multiformeOpen Targets
0.07Suggestive
gastric cancerOpen Targets
0.07Suggestive
lung adenocarcinomaOpen Targets
0.06Suggestive
breast cancerOpen Targets
0.06Suggestive
amyotrophic lateral sclerosisOpen Targets
0.05Suggestive
intrahepatic cholangiocarcinomaOpen Targets
0.05Suggestive
oral squamous cell carcinomaOpen Targets
0.04Suggestive
Nijmegen breakage syndromeOpen Targets
0.03Suggestive
bladder transitional cell carcinomaOpen Targets
0.03Suggestive
Pathogenic Variants
No pathogenic variants reported on ClinVar for this gene.
View on ClinVar ↗
Related Genes
TPRProtein interaction100%MCM3APProtein interaction100%SNRPFProtein interaction100%NXF2BProtein interaction100%NXF3Protein interaction100%SARNPProtein interaction99%
Tissue Expression6 tissues
Bone Marrow
100%
Lung
41%
Brain
38%
Ovary
31%
Heart
26%
Liver
26%
Gene Interaction Network
Click a node to explore
ALYREFTPRMCM3APSNRPFNXF2BNXF3SARNP
PROTEIN STRUCTURE
Preparing viewer…
PDB7ZNJ · 2.40 Å · EM
View on RCSB ↗
Constraintⓘ
LOEUFⓘ
0.23Highly Constrained
pLIⓘ
1.00Intolerant
Observed/Expected LoF0.05 [0.02–0.23]
RankingsWhere ALYREF stands among ~20K protein-coding genes
  • #1,197of 20,598
    Most Researched295 · top 10%
  • #664of 17,882
    Most Constrained (LOEUF)0.23 · top 5%
Genes detectedALYREF
Sources retrieved25 papers
Response time—
📄 Sources
25▼
1
The role of the HIF-1α/ALYREF/PKM2 axis in glycolysis and tumorigenesis of bladder cancer.
PMID: 33991457
Cancer Commun (Lond) · 2021
1.00
2
mRNA recognition and packaging by the human transcription-export complex.
PMID: 37020021
Nature · 2023
0.90
3
NSUN6-mediated 5-methylcytosine modification of NDRG1 mRNA promotes radioresistance in cervical cancer.
PMID: 38970106
Mol Cancer · 2024
0.80
4
m5C-modified circRREB1 promotes lung cancer progression by inducing mitophagy.
PMID: 40653497
J Exp Clin Cancer Res · 2025
0.76
5
5-methylcytosine promotes mRNA export - NSUN2 as the methyltransferase and ALYREF as an m
PMID: 28418038
Cell Res · 2017
0.70