From: CoSpliceNet: a framework for co-splicing network inference from transcriptomics data
Term | Definition |
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Canonical transcript | The splice variant with the lowest isoform number among known transcripts in the current database (e.g. TAIR10). For example, if gene X has two known transcripts X.1 and X.2, as specified in the database, X.1 is defined as the canonical form |
Co-spliced transcripts | The transcripts containing common RNA-binding motifs that are co-expressed with a specific SF |
Differentially spliced | Splice variants transcribed from the same gene that are spliced by different SFs. |
Peptide ratio | The length ratio of a given non-canonical protein isoform to the canonical protein isoform |
Protein isoforms | The proteins that are synthesized from different splice variants |
Ri region (1 ≤ i ≤ 4) | R1 (-31:-1 5′ss), R2 (0:30 5′ss), R3 (-30:0 3′ss), and R4 (1:31 3′ss) sequences for each exon in a transcript |
Ri ratio | The ratio of the number of exons containing a motif in Ri region to the total number of exons |
Splice variant (SV) | Transcripts that are products of the same precursor mRNA. |
Splicing-related proteins (SRPs) | Proteins known to be involved in the spliceosome machinery |
Splicing factor (SF) | SRPs with known RNA-binding domains |
Super-cluster | Clusters of transcripts with similar expression profiles grouped according to known Arabidopsis seed developmental stages. |