From: Intronic RNAs constitute the major fraction of the non-coding RNA in mammalian cells
Criterion | Threshold used | Number of introns detected * | Number of ensembl-specific snoRNAs detected | p-value** of overlap with ensembl-specific snoRNAs | “Sense” introns (> = 63 % sense reads) | “Sense-antisense” introns ([37 %; 63 %) sense reads) | “Antisense” introns (<37 % sense reads) | Fraction of introns with abundant antisense transcription |
---|---|---|---|---|---|---|---|---|
1. Correlation between RNAseq densities of each intron and the corresponding exons (Figure 2 B) | ≤ 0 | 30,141 | 111 | 0.009 | 28,617 | 1,258 | 266 | 5.1 % |
2. Correlation with other introns (Figure 2 C) | ≤ −0.3 | 8,989 | 39 | 0.019 | 8,529 | 384 | 76 | 5.1 % |
3. Intronic density relative to the minimal intronic density in a transcript*** (Figure 2 D) | ≥ 10 | 18,863 | 104 | 2.34E-10 | 17,491 | 1,101 | 271 | 7.3 % |
4. Maximum Intron/Exon Density Ratio (Figure 2 E) | ≥ 1 | 5,753 | 95 | 1.37E-42 | 4,936 | 594 | 223 | 14.2 % |
5. Coefficient of variation of each intron (Text) | ≤ that of exons | 40,948 | 201 | 4.31E-16 | 39,146 | 1,107 | 695 | 4.4 % |
6. DE in any timepoint (Table 3 ) | Presence of a DE bin | 25,739 | 159 | 1.34E-22 | 24,626 | 714 | 387 | 4.3 % |
Total number that pass at least one criterion | 82,481 | 349 | 4.49E-27 | 77,611 | 3,517 | 1,341 | 5.9 % | |
Maximum number that pass at least two criteria | 35,979 | 229 | 1.90E-40 | 34,315 | 1,248 | 416 | 4.6 % | |
Maximum number that pass at least three criteria | 10,111 | 103 | 2.02E-30 | 9,671 | 319 | 121 | 4.4 % |