Table 1. Numbers of protein-coding genes and non-coding transcripts that are differentially expressed (q-value cut off < 0.1 and absolute fold change ≥1.5) in 18 haploid SUT and CUT deletants and 2 heterozygous deletions.
A ‘neighbour’ gene or transcript is defined as an adjacent genomic feature.
| Protein- coding genes | Non-coding DNA | |||||||
|---|---|---|---|---|---|---|---|---|
| SUT/CUT | Number of DE genes | Up -Regulated | Down-Regulated | Neighbour DE gene | Number of DE transcripts | Up -Regulated | Down-Regulated | Neighbour DE transcript |
| SUT035 | 700 | 256 | 444 | 1 | 232 | 138 | 94 | 0 |
| SUT125 | 721 | 310 | 411 | 2 | 196 | 106 | 90 | 0 |
| SUT126 | 787 | 335 | 452 | 0 | 223 | 141 | 82 | 0 |
| SUT532 | 408 | 236 | 172 | 0 | 92 | 55 | 37 | 1 |
| CUT494/SUT053/SUT468 | 137 | 102 | 35 | 1 | 32 | 6 | 26 | 0 |
| CUT123 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| CUT248 | 2 | 2 | 0 | 0 | 0 | 0 | 0 | 0 |
| SUT129 | 16 | 8 | 8 | 0 | 2 | 1 | 1 | 0 |
| SUT304/ SUT730 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| SUT329 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| SUT722 | 1 | 1 | 0 | 1 | 0 | 0 | 0 | 0 |
| SUT171 | 2 | 1 | 1 | 1 | 0 | 0 | 0 | 0 |
| SUT346 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| SUT465 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| CUT442 | 2 | 0 | 2 | 0 | 0 | 0 | 0 | 0 |
| SUT099 | 2 | 1 | 1 | 1 | 0 | 0 | 0 | 0 |
| SUT451 | 0 | 0 | 0 | 0 | 0 | 0 | 0 | 0 |
| SUT492 | 1 | 0 | 1 | 0 | 0 | 0 | 0 | 0 |
| snR30* | 2276 | 1063 | 1213 | 0 | 408 | 335 | 73 | 2 |
| SUT075* | 2284 | 1057 | 1227 | 1 | 292 | 238 | 54 | 0 |
* snR30 and SUT075 essential ncRNA.