Transcription-Coupled Splicing
Gene co-expression module in Colonocytes
| Category | RNA processing & translation |
|---|---|
| Genes | 0 |
| Annotation certainty | 3 of 5 |
| Annotation consistency | 11 of 40 genes have a known function matching the annotation |
Why this annotation
Key hub genes include PRPF4B (spliceosomal kinase phosphorylating SR proteins), SUGP2 (G-patch splicing factor), DDX39B (RNA helicase required for mRNA export and splicing), CDK12 (cyclin-dependent kinase that phosphorylates RNA Pol II CTD and couples transcription elongation to splicing), CHD6 (chromatin remodeler), PHF14 and PAXBP1 (transcriptional regulators), SHPRH (ubiquitin E3 ligase with chromatin function), GPATCH2 and PNISR (splicing regulators), NOM1 and ZNHIT6 (ribosome biogenesis). CDK12 is a central node linking transcription elongation to co-transcriptional splicing. The module is large (40 genes) but core-coherent, representing a transcription-coupled splicing kinase program. Neighbor M90 contains CCNK (CDK12's cyclin partner), supporting this interpretation.
Genes
Most correlated modules
- RNA Splicing Processing · correlation 0.90
- Pre-mRNA Splicing · correlation 0.87
- Stress RNA Methylation · correlation 0.85
- ER Stress & Lipid Metabolism · correlation 0.84
- Chromatin-Coupled Splicing · correlation 0.83
- Spliceosome Assembly · correlation 0.78
- BEST4+ Survival Signaling · correlation 0.68
- RNA Splicing Regulation · correlation 0.68
Module annotations were drafted by a large language model from the module's genes, then reviewed and approved by a domain expert. See sources & licences.