Table 1.
Cluster assignments for genes with alternate TSSs
| Gene | TSS type | Cluster | TSS type | Cluster |
|---|---|---|---|---|
| Alh |
Non-DPE |
12 |
DPE |
23 |
| br |
Non-DPE |
9,10* |
DPE |
21 |
| CG17292 |
Non-DPE |
1 |
DPE |
3 |
| CG1906 |
DRE |
5,15 |
Non-DRE |
3 |
| CG32158 |
DRE |
25 |
Non-DRE |
3 |
| ATP-alpha |
DRE |
5 |
Non-DRE |
23 |
| Mod(mdg4) |
DRE |
5,18 |
Non-DRE |
16,19* |
| Rtnl1 |
DRE |
26 |
Non-DRE |
3,9 |
| CG4390 | DRE | 13 | Non-DRE | 3 |
A small number of genes in our data set employ multiple TSSs that are associated with different types of core promoters. Transcripts associated with these genes often exhibited different temporal patterns of expression (i.e., were assigned to different clusters), which was predicted by the type of promoter, in all except for two transcripts (indicated by an asterisk).