Pre-mRNA splicing is catalyzed by the spliceosome, a macromolecular machine dedicated to intron removal and exon ligation. Despite an abundance of in vitro information and a small number of in vivo studies, the pathway of yeast (Saccharomyces cerevisiae) in vivo spliceosome assembly remains uncertain. To address this situation, we combined in vivo depletions of U1, U2, or U5 snRNAs with chromatin immunoprecipitation (ChIP) analysis of other splicing snRNPs along an intron-containing gene. The data indicate that snRNP recruitment to nascent pre-mRNA predominantly proceeds via the canonical three-step assembly pathway: first U1, then U2, and finally the U4/U6*U5 tri-snRNP. Tandem affinity purification (TAP) using a U2 snRNP-tagged protein allowed the characterization of in vivo assembled higher-order splicing complexes. Consistent with an independent snRNP assembly pathway, we observed high levels of U1-U2 prespliceosomes under U5-depletion conditions, and we observed significant levels of a U2/U5/U6/Prp19-complex mature splicing complex under wild-type conditions. These complexes have implications for the steady-state distribution of snRNPs within nuclei and also reinforce the stepwise recruitment of U1, U2, and the tri-snRNP during in vivo spliceosome assembly.
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| Gene/Complex | Qualifier | Gene Ontology Term | Annotation Extension | Evidence | Source | Assigned On |
|---|---|---|---|---|---|---|
| U2 small nuclear ribonucleoprotein complex | located in | nucleus | BSR | ComplexPortal | 2016-04-01 | |
| U2 small nuclear ribonucleoprotein complex | involved in | U2-type prespliceosome assembly | BSR | ComplexPortal | 2016-04-01 | |
| U2 small nuclear ribonucleoprotein complex | involved in | mRNA splicing, via spliceosome | BSR | ComplexPortal | 2016-04-01 | |
| U2 small nuclear ribonucleoprotein complex | enables | pre-mRNA branch point binding | BSR | ComplexPortal | 2016-04-01 | |
| MUD1 | part of | U2-type prespliceosome | IDA | SGD | 2013-08-07 | |
| PRP9 | part of | U2-type prespliceosome | IDA | SGD | 2013-08-07 | |
| PRP11 | part of | U2-type prespliceosome | IDA | SGD | 2013-08-07 | |
| LUC7 | part of | U2-type prespliceosome | IDA | SGD | 2013-08-07 | |
| PRP42 | part of | U2-type prespliceosome | IDA | SGD | 2013-08-07 | |
| SNU56 | part of | U2-type prespliceosome | IDA | SGD | 2013-08-07 |
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| Evidence ID | Analyze ID | Interactor | Interactor Systematic Name | Interactor | Interactor Systematic Name | Allele | Assay | Annotation | Action | Phenotype | SGA score | P-value | Source | Reference | Note |
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| Interactor | Interactor | Assay | Annotation | Action | Modification | |
|---|---|---|---|---|---|---|
| BRR2 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| CEF1 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| CLF1 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| CUS1 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| CWC15 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| CWC2 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| ECM2 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| HSH155 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| HSH49 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification | |
| ISY1 | LEA1 | Affinity Capture-MS | manually curated | Hit-Bait | No Modification |