ALYREF

Aly/REF export factor
PDB rendering based on 1no8.
Available structures PDB Ortholog search: PDBe, RCSB List of PDB id codes 3ULH​
Identifiers
Symbols	ALYREF ; ALY; ALY/REF; BEF; REF; THOC4
External IDs	OMIM: 604171 MGI: 1341044 HomoloGene: 134554 GeneCards: ALYREF Gene
Gene ontology Molecular function • nucleotide binding • protein binding • poly(A) RNA binding Cellular component • transcription export complex • nucleus • nucleoplasm • cytosol • membrane • nuclear speck • exon-exon junction complex • intracellular membrane-bounded organelle • extracellular exosome • catalytic step 2 spliceosome Biological process • regulation of DNA recombination • mRNA splicing, via spliceosome • osteoblast differentiation • transcription from RNA polymerase II promoter • termination of RNA polymerase II transcription • mRNA export from nucleus • RNA splicing • gene expression • mRNA 3'-end processing • replication fork processing • positive regulation of DNA-templated transcription, elongation • viral mRNA export from host cell nucleus Sources: Amigo / QuickGO
Orthologs
Species	Human	Mouse
Entrez	10189	21681
Ensembl	ENSG00000183684	ENSMUSG00000025134
UniProt	Q86V81	O08583
RefSeq (mRNA)	NM_005782	NM_011568
RefSeq (protein)	NP_005773	NP_035698
Location (UCSC)	Chr 17: 81.89 – 81.89 Mb	Chr 11: 120.59 – 120.6 Mb
PubMed search

Aly/REF export factor, also known as THO complex subunit 4 is a protein that in humans is encoded by the ALYREF gene.^[1][2]

The protein encoded by this gene is a heat stable, nuclear protein and functions as a molecular chaperone. It is thought to regulate dimerization, DNA binding, and transcriptional activity of basic region-leucine zipper (bZIP) proteins.^[3]

References

1. Muravenko OV, Gizatullin RZ, Al-Amin AN, Protopopov AI, Kashuba VI, Zelenin AV, Zabarovsky ER (Jan 2001). "Human ALY/BEF gene Map position 17q25.3". Chromosome Res 8 (6): 562. doi:10.1023/A:1009236126053. PMID 11032328.
2. "Entrez Gene: ALYREF Aly/REF export factor".
3. "Entrez Gene: THOC4 THO complex 4".

Further reading

• Bruhn L, Munnerlyn A, Grosschedl R (1997). "ALY, a context-dependent coactivator of LEF-1 and AML-1, is required for TCRalpha enhancer function.". Genes Dev. 11 (5): 640–53. doi:10.1101/gad.11.5.640. PMID 9119228.
• Neubauer G, King A, Rappsilber J; et al. (1998). "Mass spectrometry and EST-database searching allows characterization of the multi-protein spliceosome complex.". Nat. Genet. 20 (1): 46–50. doi:10.1038/1700. PMID 9731529.
• Wichmann I, Garcia-Lozano JR, Respaldiza N; et al. (1999). "Autoantibodies to transcriptional regulation proteins DEK and ALY in a patient with systemic lupus erythematosus.". Hum. Immunol. 60 (1): 57–62. doi:10.1016/S0198-8859(98)00085-8. PMID 9952027.
• Virbasius CM, Wagner S, Green MR (1999). "A human nuclear-localized chaperone that regulates dimerization, DNA binding, and transcriptional activity of bZIP proteins.". Mol. Cell 4 (2): 219–28. doi:10.1016/S1097-2765(00)80369-X. PMID 10488337.
• Le Hir H, Izaurralde E, Maquat LE, Moore MJ (2001). "The spliceosome deposits multiple proteins 20-24 nucleotides upstream of mRNA exon-exon junctions.". EMBO J. 19 (24): 6860–9. doi:10.1093/emboj/19.24.6860. PMC 305905. PMID 11118221.
• Kim VN, Kataoka N, Dreyfuss G (2001). "Role of the nonsense-mediated decay factor hUpf3 in the splicing-dependent exon-exon junction complex.". Science 293 (5536): 1832–6. doi:10.1126/science.1062829. PMID 11546873.
• Luo ML, Zhou Z, Magni K; et al. (2001). "Pre-mRNA splicing and mRNA export linked by direct interactions between UAP56 and Aly.". Nature 413 (6856): 644–7. doi:10.1038/35098106. PMID 11675789.
• Kataoka N, Diem MD, Kim VN; et al. (2002). "Magoh, a human homolog of Drosophila mago nashi protein, is a component of the splicing-dependent exon-exon junction complex.". EMBO J. 20 (22): 6424–33. doi:10.1093/emboj/20.22.6424. PMC 125744. PMID 11707413.
• Strässer K, Masuda S, Mason P; et al. (2002). "TREX is a conserved complex coupling transcription with messenger RNA export.". Nature 417 (6886): 304–8. doi:10.1038/nature746. PMID 11979277.
• Jurica MS, Licklider LJ, Gygi SR; et al. (2002). "Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis.". RNA 8 (4): 426–39. doi:10.1017/S1355838202021088. PMC 1370266. PMID 11991638.
• Rappsilber J, Ryder U, Lamond AI, Mann M (2002). "Large-scale proteomic analysis of the human spliceosome.". Genome Res. 12 (8): 1231–45. doi:10.1101/gr.473902. PMC 186633. PMID 12176931.
• Chen IH, Sciabica KS, Sandri-Goldin RM (2002). "ICP27 interacts with the RNA export factor Aly/REF to direct herpes simplex virus type 1 intronless mRNAs to the TAP export pathway.". J. Virol. 76 (24): 12877–89. doi:10.1128/JVI.76.24.12877-12889.2002. PMC 136725. PMID 12438613.
• Strausberg RL, Feingold EA, Grouse LH; et al. (2003). "Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.". Proc. Natl. Acad. Sci. U.S.A. 99 (26): 16899–903. doi:10.1073/pnas.242603899. PMC 139241. PMID 12477932.
• McCracken S, Longman D, Johnstone IL; et al. (2004). "An evolutionarily conserved role for SRm160 in 3'-end processing that functions independently of exon junction complex formation.". J. Biol. Chem. 278 (45): 44153–60. doi:10.1074/jbc.M306856200. PMID 12944400.
• Pryor A, Tung L, Yang Z; et al. (2004). "Growth-regulated expression and G0-specific turnover of the mRNA that encodes URH49, a mammalian DExH/D box protein that is highly related to the mRNA export protein UAP56.". Nucleic Acids Res. 32 (6): 1857–65. doi:10.1093/nar/gkh347. PMC 390356. PMID 15047853.
• Gerhard DS, Wagner L, Feingold EA; et al. (2004). "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).". Genome Res. 14 (10B): 2121–7. doi:10.1101/gr.2596504. PMC 528928. PMID 15489334.
• Ong SE, Mittler G, Mann M (2005). "Identifying and quantifying in vivo methylation sites by heavy methyl SILAC.". Nat. Methods 1 (2): 119–26. doi:10.1038/nmeth715. PMID 15782174.
• Masuda S, Das R, Cheng H; et al. (2005). "Recruitment of the human TREX complex to mRNA during splicing.". Genes Dev. 19 (13): 1512–7. doi:10.1101/gad.1302205. PMC 1172058. PMID 15998806.
• Mertz JA, Kobayashi R, Dudley JP (2007). "ALY is a common coactivator of RUNX1 and c-Myb on the type B leukemogenic virus enhancer.". J. Virol. 81 (7): 3503–13. doi:10.1128/JVI.02253-06. PMC 1866045. PMID 17229714.
• Quaresma AJ, Sievert R, Nickerson JA (2013). "Regulation of mRNA export by the PI3 kinase/AKT signal transduction pathway.". Mol. Biol. Cell. April (8): 1208–21. doi:10.1091/mbc.E12-06-0450. PMC 3623641. PMID 23427269.

External links

• ALYREF human gene location in the UCSC Genome Browser.
• ALYREF human gene details in the UCSC Genome Browser.