IARA: a complete and curated atlas of the biogenesis of spliceosome machinery during RNA splicing

Abstract

Splicing is one of the most important post-transcriptional processing systems and is responsible for the generation of transcriptome diversity in all living eukaryotes. Splicing is regulated by the spliceosome machinery, which is responsible for each step of primary RNA processing. However, current molecules and stages involved in RNA splicing are still spread over different studies. Thus, a curated atlas of spliceosome-related molecules and all involved stages during RNA processing can provide all researchers with a reliable resource to better investigate this important mechanism. Here, we present IARA (website access:https://pucpr-bioinformatics.github.io/atlas/), an extensively curated and constantly updated catalog of molecules involved in spliceosome machinery. IARA has a map of the steps involved in the human splicing mechanism, and it allows a detailed overview of the molecules involved throughout the distinct steps of splicing.

Human mtDNA-Encoded Long ncRNAs: Knotty Molecules and Complex Functions

“…This is further supported by experimental evidence that the organelle contains essential parts of the nuclei-encoded spliceosome machinery. However, more investigations are needed to determine whether mtDNA-related molecules can participate in this process in humans [72]. An interesting aspect is that the observed spliced transcripts are expressed in a cell-type-specific manner.…”

Small molecules modulating RNA splicing: a review of targets and future perspectives

“…1C). 1,3 Within the pre-mRNA, cis-acting regulatory sequences, such as 5′ and 3′ splice sites, branch point (BP), intronic and exonic splicing enhancers (ISE, ESE) and silencers (ISS, ESS), delineate the recruitment sites for spliceosome components and trans-splicing factors. 4 RNA splicing is modulated by the interplay between cis-acting regulatory sequences and trans-acting splicing factors, leading to alternative splicing.…”

Characterization of the SF3B1–SUGP1 interface reveals how numerous cancer mutations cause mRNA missplicing

“…After recruitment of the U4/U6.U5 tri-snRNP and structural rearrangements, the fully assembled spliceosome is activated and carries out two sequential transesterification reactions to remove the intron and join together the flanking exons ( Wahl et al 2009 ). During each splicing cycle, the spliceosome rapidly changes its composition and conformation to carry out its function and is now thought to progress through numerous distinct conformational states, including E, A, pre-B, B, B act , B*, C, C*, P, and intron lariat spliceosome (ILS) complexes ( Wahl et al 2009 ; Rodrigues et al 2023 ).…”