ALYREF — Aly/REF export factor
ALYREF belongs to a gene co-expression module in 6 of 28 SCUBA cell types. Each module groups genes that rise and fall together in that cell type; the genes it shares a module with are its closest co-expression partners there.
ALYREF's module in each cell type
| Cell type | Module | Shares the module with | |
|---|---|---|---|
| CD19⁺ B cells | Cell Cycle Proliferation Cell cycle | ANP32E, BCL2L12, BIRC5, BUB3, CENPW, CEP55, CKS1B, DTYMK +4 more | View in SCUBA |
| Endothelial | Nuclear Transport Housekeeping | BANF1, CNIH4, COX8A, HAUS1, HMGN1, ILF2, LSM5, MRPL51 +8 more | View in SCUBA |
| Gamma-delta T cells | GPCR-AKT-MAPK Signaling TCR Signaling | ADNP, AKT1, B3GALT6, BRD4, BRI3, BTBD6, CENPB, CLPTM1L +29 more | |
| Goblet cells | Spliceosome Assembly RNA processing & translation | ANAPC11, BANF1, LSM4, MRPL51, PPIH, PTBP1, RAN, RANBP1 +8 more | View in SCUBA |
| Innate lymphoid cells | AP-1 Transcriptional Activation DNA regulation & transcription | AHNAK, CD81, CDV3, CITED4, ESYT2, ETS1, GNAI2, GRK2 +28 more | View in SCUBA |
| Mucosal-associated invariant T cell | Transcriptional Co-regulation DNA/chromatin regulation | CCNT1, CSNK1E, FBXO7, MXRA7, PLEKHM2, PLXND1, TADA2B, WDR26 +1 more |
About the gene
| Synonyms | ALY, ALY/REF, BEF, REF, THOC4 |
|---|---|
| Chromosome | 17: 81887835-81891586 |
| Predicted location | Intracellular |
| Essential gene | Yes |
| Protein class | Essential proteins, Predicted intracellular proteins |
Function
Functions as an mRNA export adapter; component of the transcription/export (TREX) complex which is thought to couple mRNA transcription, processing and nuclear export, and specifically associates with spliced mRNA and not with unspliced pre-mRNA. TREX is recruited to spliced mRNAs by a transcription-independent mechanism, binds to mRNA upstream of the exon-junction complex (EJC) and is recruited in a splicing- and cap-dependent manner to a region near the 5' end of the mRNA where it functions in mRNA export to the cytoplasm via the TAP/NXF1 pathway. Involved in the nuclear export of intronless mRNA; proposed to be recruited to intronless mRNA by ATP-bound DDX39B. Plays a key role in mRNP recognition and mRNA packaging by bridging the mRNP-bound EJC and the TREX core complex. TREX recruitment occurs via an interaction between ALYREF/THOC4 and the cap- binding protein NCBP1. Required for TREX complex assembly and for linking DDX39B to the cap-binding complex (CBC). Binds mRNA which is thought to be transferred to the NXF1-NXT1 heterodimer for export (TAP/NXF1 pathway). In conjunction with THOC5 functions in NXF1-NXT1 mediated nuclear export of HSP70 mRNA; both proteins enhance the RNA binding activity of NXF1 and are required for NXF1 localization to the nuclear rim. Involved in mRNA export of C5-methylcytosine (m5C)- containing mRNAs: specifically recognizes and binds m5C mRNAs and mediates their nucleo-cytoplasmic shuttling. Acts as a chaperone and promotes the dimerization of transcription factors containing basic leucine zipper (bZIP) domains and thereby promotes transcriptional activation. Involved in transcription elongation and genome stability. (Microbial infection) The TREX complex is essential for the export of Kaposi's sarcoma-associated herpesvirus (KSHV) intronless mRNAs and infectious virus production; ALYREF/THOC4 mediates the recruitment of the TREX complex to the intronless viral mRNA
Human Protein Atlas · Open Targets
Gene annotation from the Human Protein Atlas and UniProt; see sources & licences.