RNA class | High |
|---|
| Â | Families | Loci |
|---|
cisreg-elements | 31 | 139 |
lncRNA-loci | 58 | 58 |
miRNA | 321 | 359 |
ribozyme | 3 | 8 |
rRNA | 5 | 185 |
snoRNA | 211 | 638 |
snRNA | 10 | 1,030 |
tRNA | 51 | 810 |
Other | 7 | 153 |
Conflict | 9 | 11 |
Sum | 706 | 3,391 |
- The combined results of the sequence similarity search, structure homology search and class specific tools at the high confident cutoff level (See Table 1). The column RNA class contains cisreg-elements: cis-regulatory elements from Rfam/Infernal; lncRNA-loci: Infernal lncRNA structure loci; the next 7 rows contain (full length) ncRNA genes, miRNA: BLAST from miRBase and miRDeep predictions; ribozyme: ribozymes from Rfam/Infernal; rRNA: ribosomoal RNAs primarily from RNAmmer; snRNA and snoRNA: BLAST results and results from Infernal/Rfam; tRNA: tRNAs tRNAs from BLAST; tRNAscan-SE and Infernal/Rfam; lncRNA-loci: structural loci from larger genes(lncRNAs); other: RNA families from Rfam not belonging to one of the other classes; conflict: conflicts of annotation. Loci are the number of RNA loci of a given class; Families are a subdivision of classes into RNAs with the same name. 12 tRNAs and 15 miRNAs were moved to the medium confident annotation as part of the curation procedure. See text for details. Note that for the final high confident annotation we add 165 RNA-seq based miRNA candidates, reaching the total of 3,556 high confident RNA loci.
