Table S2.
List of the affected genes on the X chromosome (increased HP1 or H3K9me2 binding genes after CDK12 depletion) that are highly expressed in the WT brain (ratio > 2)
| Gene symbol | Brain mean | Whole-fly mean | Ratio |
| Increased HP1 binding after CDK12 depletion | |||
| AlstR | 143.3 | 2.9 | 49.4 |
| Sh | 355.3 | 7.6 | 46.6 |
| mmd | 84.1 | 2.1 | 41.0 |
| CG9170 | 774.2 | 21.7 | 35.7 |
| rab3-GEF | 1,005.3 | 33.5 | 30.0 |
| SK | 262.8 | 10.4 | 25.4 |
| CG15478 | 110.6 | 5.0 | 22.1 |
| stnB | 1963.5 | 90.6 | 21.7 |
| X11Lβ | 199.6 | 9.4 | 21.2 |
| para | 135.5 | 7.9 | 17.2 |
| CG1504 | 15.2 | 0.9 | 16.9 |
| inaE | 186.5 | 17.0 | 11.0 |
| shakB | 56.7 | 6.3 | 8.9 |
| kirre | 61.3 | 8.6 | 7.1 |
| Hers | 500.0 | 73.8 | 6.8 |
| CG12496 | 3.2 | 0.5 | 6.4 |
| Scgδ | 37.0 | 6.4 | 5.8 |
| sdt | 88.7 | 16.9 | 5.3 |
| dnc | 294.2 | 72.0 | 4.1 |
| CG42340 | 19.3 | 4.9 | 3.9 |
| Ste:CG33236 | 31.5 | 8.2 | 3.8 |
| CG33496 | 15.9 | 4.2 | 3.8 |
| rdgA | 34.4 | 9.9 | 3.5 |
| Fas2 | 197.1 | 59.2 | 3.3 |
| CG12531 | 10.0 | 3.0 | 3.3 |
| eag | 12.7 | 4.2 | 3.0 |
| disco | 61.2 | 20.8 | 2.9 |
| α-Man-I | 166.8 | 58.0 | 2.9 |
| Increased H3K9me2 binding after CDK12 depletion | |||
| gfA | 195.7 | 2.5 | 78.3 |
| D2R | 222.8 | 4.1 | 54.3 |
| CG42492 | 744.4 | 13.9 | 53.7 |
| AlstR | 143.3 | 2.9 | 49.4 |
| CG6123 | 114.3 | 2.4 | 47.6 |
| Sh | 309.3 | 6.7 | 46.1 |
| mmd | 84.1 | 2.1 | 41.0 |
| Syt12 | 241.1 | 6.4 | 37.7 |
| CG9170 | 774.2 | 21.7 | 35.7 |
| nAcRα-7E | 120.9 | 3.6 | 33.6 |
| CG8909 | 897.8 | 28.4 | 31.6 |
| CG7135 | 202.8 | 6.7 | 30.3 |
| rab3-GEF | 1,005.3 | 33.5 | 30.0 |
| Vsx1 | 39.7 | 1.4 | 28.4 |
| Rph | 390.2 | 14.0 | 27.9 |
| cngl | 86.5 | 3.4 | 25.6 |
| SK | 262.8 | 10.4 | 25.4 |
| stnB | 1,963.5 | 90.6 | 21.7 |
| NetB | 628.3 | 31.0 | 20.3 |
| Hk | 289.7 | 16.8 | 17.2 |
| Para | 135.5 | 7.9 | 17.2 |
| CG1504 | 15.2 | 0.9 | 16.9 |
| Nep3 | 387.1 | 24.0 | 16.1 |
| CG43902 | 111.2 | 8.2 | 13.6 |
| CG42450 | 24.3 | 1.9 | 13.1 |
| Tty | 60.8 | 4.7 | 12.9 |
| CG32653 | 74.2 | 5.9 | 12.6 |
| acj6 | 84.8 | 7.0 | 12.1 |
| CG11085 | 14.4 | 1.2 | 12.0 |
| Hiw | 322.2 | 27.8 | 11.6 |
| tomosyn | 1,683.5 | 145.9 | 11.5 |
| CG32532 | 51.8 | 4.5 | 11.5 |
| Rg | 385.4 | 33.7 | 11.5 |
| CG34411 | 14.5 | 1.5 | 9.7 |
| shakB | 56.7 | 6.3 | 8.9 |
| CanA-14F | 176.9 | 20.4 | 8.7 |
| CG32791 | 69.0 | 9.0 | 7.7 |
| Hers | 500.0 | 73.8 | 6.8 |
| Fend | 426.1 | 62.9 | 6.8 |
| Or13a | 18.2 | 2.8 | 6.5 |
| mamo | 36.0 | 6.2 | 5.9 |
| DIP1 | 1,183.1 | 214.4 | 5.5 |
| Tyn | 87.7 | 16.2 | 5.4 |
| Sdt | 88.7 | 16.9 | 5.3 |
| Pde9 | 73.0 | 14.9 | 4.9 |
| Ca-α1T | 22.0 | 4.5 | 4.9 |
| CG11294 | 34.4 | 7.3 | 4.7 |
| CG14431 | 17.5 | 3.9 | 4.5 |
| CG11071 | 5.8 | 1.3 | 4.5 |
| norpA | 326.5 | 73.4 | 4.4 |
| CG32521 | 524.6 | 118.2 | 4.4 |
| Br | 45.7 | 10.4 | 4.4 |
| Proc-R | 3.4 | 0.8 | 4.3 |
| Dnc | 294.2 | 72.0 | 4.1 |
| CG42340 | 19.3 | 4.9 | 3.9 |
| Hexo2 | 805.0 | 205.1 | 3.9 |
| CG33491 | 15.9 | 4.2 | 3.8 |
| CG42594 | 14.4 | 3.8 | 3.8 |
| CG33639 | 15.8 | 4.4 | 3.6 |
| rdgA | 34.4 | 9.9 | 3.5 |
| Fas2 | 197.1 | 59.2 | 3.3 |
| CG42343 | 7.4 | 2.3 | 3.3 |
| Eag | 12.7 | 4.2 | 3.0 |
| Mgl | 180.0 | 60.6 | 3.0 |
| dlg1 | 132.4 | 50.9 | 2.6 |
| Sbr | 550.2 | 223.5 | 2.5 |
| kek5 | 44.6 | 18.9 | 2.4 |
| dmrt11E | 2.1 | 0.9 | 2.3 |
| CG6847 | 41.1 | 18.3 | 2.2 |
| CG43154 | 153.4 | 70.2 | 2.2 |
Expression data were obtained from the FlyAtlas database. The relative expression ratios were determined by log10 scale and normalized to the whole-fly, genome-wide mean. Ratio > 2 was taken as highly expressed genes in WT brain.