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Table 1 Overlap of CRSs with the Drosophila melanogaster genomic FlyBase annotation (dmel_r6.15, FB2017_02)

From: Identification and characterization of novel conserved RNA structures in Drosophila

Feature

Number of CRSs overlapped

Percentage of CRSs overlapped

Fold enrichment

P-value

Total feature number

Number of features overlapped

Percentage of features overlapped

Exon coding

2294

7.5%

0.38

1.0

57906

2375

4.1%

Exon 5’-UTR

1082

3.5%

1.53

4·10−12

16930

1242

7.3%

Exon 3’-UTR

2409

7.8%

1.63

6·10−113

11288

1766

15.6%

Exon both UTRs

13

0%

1.13

0.72

415

16

3.9%

Exon ncRNA

661

2.2%

1.50

4·10−15

4120

588

14.3%

Intron

15565

50.7%

1.24

3·10−221

52410

6507

12.4%

Intergenic

8639

28.1%

1.12

5·10−26

12348

2924

23.7%

Unmapped alignment blocks

47

0.2%

1152

  1. Annotation tracks were unified to avoid overlapping annotation elements and thereby ambiguous assignment of annotation categories to CRSs. In this context, annotation positions with overlapping 5’- and 3’-UTR exons have been collected in the “Exon both UTRs” category (see “Methods” for details). Predictions overlap the unified annotation feature by at least 1 nt, not considering strands. Prediction counts are given as rounded fractions according to the number of unified annotation features they overlap with. Percentages give the fraction of overlapping from total predictions. Fold enrichments and significance were calculated based on the annotation features contained in the CMfinder input alignments