GlyCosmos Portal

Drosophila melanogaster (fruit fly)

Summary

Taxonomy ID: 7227
PubChem Taxonomy: 7227

Genes (311) Glycans (91) Glycoproteins (923) Lectins (38) Pathways (597)

Displaying entries **126 - 150** of **597** in total

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Pathway Name	Protein Name	UniProt ID	Gene Symbol ▲
Acyl chain remodelling of PS	Accessory gland protein Acp29AB C-type lectin domain-containing protein FI01450p FI01825p FI22312p1 GH01208p GH15759p GXIVsPLA2, isoform A IP10831p IP12247p IP13478p IP20609p (Fragment) LD47264p LP07116p LP08709p Lipase domain-containing protein Lipase domain-containing protein Lipase domain-containing protein Lipase domain-containing protein Lysophosphatidylcholine acyltransferase Lysophospholipid acyltransferase 5 Lysophospholipid acyltransferase 6 MIP10846p1 MIP30168p Oxysterol-binding protein Phospholipase A2 RE23868p RE51539p RE56633p RH13166p RT07891p Uncharacterized protein, isoform A Uncharacterized protein, isoform A Uncharacterized protein, isoform B Uncharacterized protein, isoform B Uncharacterized protein, isoform C Uncharacterized protein, isoform C Uncharacterized protein, isoform C	A0A0B4JCZ0 A1ZAL5 A8DYT7 M9MRT1 M9NFL7 O46197 Q0E8T1 Q0KHU5 Q4V566 Q6GV06 Q6NN55 Q7K3Z8 Q8IML0 Q9V9P0 Q9VB88 Q9VB89 Q9VB90 Q9VB91 Q9VB92 Q9VB93 Q9VB94 Q9VBQ2 Q9VEY9 Q9VJH1 Q9VLU1 Q9VPS3 Q9VQ96 Q9VQC2 Q9VRW5 Q9VU78 Q9VUV6 Q9VVX5 Q9VX01 Q9VX69 Q9VX70 Q9VZN6 Q9W304 Q9W448	141233_at AC 005889A AC005889a Acp29AB CG10163-RA CG11535 CG15684 CG17011-RA CG18641-RB CG31684 CG31686 CG34448-RA CG5077 CG6847-RA CG9966 CT41369 DmelL1 DmelL2 DmelL3 DmelL4 DmelL5 DmelL6 DmelL7 Dmel\CG10116 Dmel\CG10163 Dmel\CG10357 Dmel\CG13282 Dmel\CG14034 Dmel\CG14507 Dmel\CG17011 Dmel\CG17035 Dmel\CG17191 Dmel\CG17192 Dmel\CG17292 Dmel\CG18258 Dmel\CG18641 Dmel\CG1986 Dmel\CG2839 Dmel\CG34447 Dmel\CG34448 Dmel\CG42668 Dmel\CG4267 Dmel\CG4582 Dmel\CG4979 Dmel\CG5162 Dmel\CG5665 Dmel\CG5966 Dmel\CG6271 Dmel\CG6277 Dmel\CG6283 Dmel\CG6295 Dmel\CG6296 Dmel\CG6431 Dmel\CG6472 Dmel\CG6675 Dmel\CG6847 Dmel\CG7367 GXIVsPLA GXIVsPLA2 LPCAT Lectin-30A Lectin30A Orp8 TL anon-SAGE:Wang-051 anon-SAGE:Wang-122 cg5665 chr2L_10724193_10724543.0 lectin-30A nes nessy oys sxe2
Assembly of active LPL and LIPC lipase complexes	FI01450p FI01825p FI22312p1 Furin-like protease 1, isoforms 1/1-X/2 GH01208p GH15759p IP10831p IP12247p IP13478p LD47264p LP07116p LP08709p Lipase domain-containing protein Lipase domain-containing protein Lipase domain-containing protein Lipase domain-containing protein MIP10846p1 MIP30168p Protein quiver RE23868p RE51539p RE56633p RH13166p RT07891p Uncharacterized protein, isoform A Uncharacterized protein, isoform A Uncharacterized protein, isoform B Uncharacterized protein, isoform B Uncharacterized protein, isoform C Uncharacterized protein, isoform C Uncharacterized protein, isoform C	A1ZAL5 A1ZBJ7 A8DYT7 M9MRT1 M9NFL7 P26016 Q0E8T1 Q4V566 Q7K3Z8 Q9V9P0 Q9VB88 Q9VB89 Q9VB90 Q9VB91 Q9VB92 Q9VB93 Q9VB94 Q9VBQ2 Q9VEY9 Q9VJH1 Q9VLU1 Q9VQ96 Q9VQC2 Q9VRW5 Q9VU78 Q9VX01 Q9VX69 Q9VX70 Q9VZN6 Q9W304 Q9W448	141233_at BP1009 CG10163-RA CG11535 CG18641-RB CG31684 CG31686 CG34448-RA CG6847-RA CG9966 CT41369 DmelL1 DmelL2 DmelL3 DmelL4 DmelL5 DmelL6 DmelL7 Dmel\CG10116 Dmel\CG10163 Dmel\CG10357 Dmel\CG13282 Dmel\CG14034 Dmel\CG17191 Dmel\CG17192 Dmel\CG17292 Dmel\CG18258 Dmel\CG18641 Dmel\CG1986 Dmel\CG34045 Dmel\CG34447 Dmel\CG34448 Dmel\CG4267 Dmel\CG4582 Dmel\CG4979 Dmel\CG5162 Dmel\CG5665 Dmel\CG5966 Dmel\CG6271 Dmel\CG6277 Dmel\CG6283 Dmel\CG6295 Dmel\CG6296 Dmel\CG6431 Dmel\CG6472 Dmel\CG6675 Dmel\CG6847 Dmel\CG7367 Fur1 TL anon-SAGE:Wang-051 anon-SAGE:Wang-122 cg5665 chr2L_10724193_10724543.0 sxe2
Mitochondrial protein degradation	2-oxoglutarate dehydrogenase, mitochondrial 2-oxoglutarate dehydrogenase, mitochondrial 3-hydroxyacyl-CoA dehydrogenase type-2 3-oxoacyl-[acyl-carrier-protein] synthase 5-aminolevulinate synthase ADP,ATP carrier protein ADP/ATP translocase AFG3 like matrix AAA peptidase subunit 2, isoform A AT02348p ATP synthase subunit O, mitochondrial ATP synthase subunit a ATP synthase subunit alpha, mitochondrial ATP synthase subunit beta, mitochondrial ATP synthase subunit d, mitochondrial ATP synthase subunit gamma, mitochondrial ATP synthase subunit ATP synthase-coupling factor 6, mitochondrial ATP-dependent Clp protease proteolytic subunit ATP-dependent zinc metalloprotease YME1L Aconitate hydratase, mitochondrial Aldehyde dehydrogenase Amyloid-beta-like protein Arginase Cytochrome b-c1 complex subunit 8 Cytochrome c oxidase subunit 1 Cytochrome c oxidase subunit 5A, mitochondrial Cytochrome c oxidase subunit 5B, isoform A Delta-1-pyrroline-5-carboxylate synthase Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex Dihydrolipoyl dehydrogenase Essential MCU regulator, mitochondrial Ferrochelatase, mitochondrial GH17657p GH26015p GM03767p Glutamate dehydrogenase, mitochondrial Heat shock 70 kDa protein cognate 5 Heat shock protein 60A High mobility group protein D Hydroxymethylglutaryl-CoA synthase LD24105p Large ribosomal subunit protein bL32m Lon protease homolog, mitochondrial Malate dehydrogenase, mitochondrial Malic enzyme like-2, isoform A Malic enzyme Malic enzyme Malic enzyme Mitochondrial DNA helicase Mitochondrial ribosomal protein S2 Mitochondrial-processing peptidase subunit alpha NAD kinase 2, mitochondrial NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 13 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 2 NADH dehydrogenase [ubiquinone] flavoprotein 1, mitochondrial NADH dehydrogenase [ubiquinone] iron-sulfur protein 3, mitochondrial NADH-ubiquinone oxidoreductase 75 kDa subunit, mitochondrial Paraplegin, isoform A Probable citrate synthase, mitochondrial Probable isocitrate dehydrogenase [NAD] subunit alpha, mitochondrial Pyruvate dehydrogenase E1 component subunit alpha Pyruvate dehydrogenase E1 component subunit beta, mitochondrial RE22677p RH73277p Serine protease HTRA2, mitochondrial Short-chain dehydrogenase/reductase Short/branched chain specific acyl-CoA dehydrogenase, mitochondrial Single-stranded DNA-binding protein, mitochondrial Small ribosomal subunit protein uS10m Succinate--CoA ligase [GDP-forming] subunit beta, mitochondrial Succinyl-CoA Uncharacterized protein, isoform B Uncharacterized protein, isoform C [Pyruvate dehydrogenase (acetyl-transferring)] kinase, mitochondrial cAMP-dependent protein kinase catalytic subunit 1 fumarate hydratase isoleucine--tRNA ligase	A0A0B4K6I6 A0A0B4KEG0 A0A0B4LID7 A1ZAF6 A8JNU6 E1JIZ4 F3YDF1 O01666 O02649 O18404 O18680 O62526 O76895 P00399 P00850 P12370 P14599 P29845 P35381 P54385 P54622 P91622 Q05783 Q05825 Q24251 Q24407 Q24439 Q26365 Q7JX57 Q7K3N4 Q7K3R0 Q7K3W2 Q7K4Q9 Q7K5K3 Q7KUT2 Q7KVX1 Q86NT5 Q8MSS7 Q8T4G5 Q94511 Q94514 Q95T35 Q9V470 Q9V9S8 Q9V9Z1 Q9VAH3 Q9VEB1 Q9VFB2 Q9VFJ3 Q9VG31 Q9VIE8 Q9VKM3 Q9VKY3 Q9VL68 Q9VL76 Q9VLC5 Q9VMB9 Q9VMI3 Q9VNF5 Q9VNW6 Q9VR00 Q9VSR5 Q9VUY4 Q9VV75 Q9VVH5 Q9VVL7 Q9VVU1 Q9VWH4 Q9VXY3 Q9VZU4 Q9W058 Q9W3N9 Q9W3X6 Q9W401 Q9W402 Q9W4W8 Q9W5W8	141810_at 142911_at 146084_at 150697_at 154229_at A/A-T ACDH ACON-1 AFG3L2 ALAS ALDH ALDHA1 ANT2 ATP6 ATPN ATPSYN-ALPHA ATPase6 ATPsyn-beta ATPsyn-d ATPsyn-gamma ATPsynCF6 ATPsynD ATPsynG ATPsynO ATPsynbeta ATPsyngamma Acat1 Acon AconM Afg3l2 Alas Alas-RA Aldh Ant2 Ant2-RA Ant2-RB Appl Arg BEST:GH10550 BEST:GH10978 BcDNA:AT13736 BcDNA:RE20862 BcDNA:RE53508 BcDNA:RH28372 BcDNA:RH49324 CG 3752 CG 3902 CG 4094 CG 4169 CG 7010 CG 7998 CG13918 CG16796 CG18168 CG18170 CG30097 CG30346 CG32316 CG32316-ORFB CG3902-RA CG6309 CG7934 CG8728-RA COX5A COX5B COXB COXVb CT12987 CT19744 CcO Vb CdkA ClpP ClpX CoI CoVa CoVb Cox5b DC0 DOGDH Dbct Dld Dm100G10.aj DmALDH DmCG6512 DmSDR1 Dmel\CG10120 Dmel\CG10622 Dmel\CG10932 Dmel\CG11015 Dmel\CG11661 Dmel\CG12068 Dmel\CG12170 Dmel\CG15434 Dmel\CG1683 Dmel\CG18104 Dmel\CG2658 Dmel\CG2937 Dmel\CG3017 Dmel\CG31075 Dmel\CG33791 Dmel\CG3446 Dmel\CG3752 Dmel\CG3902 Dmel\CG4094 Dmel\CG4169 Dmel\CG4311 Dmel\CG4538 Dmel\CG4598 Dmel\CG5012 Dmel\CG5045 Dmel\CG5414 Dmel\CG5599 Dmel\CG5889 Dmel\CG6105 Dmel\CG6512 Dmel\CG7010 Dmel\CG7430 Dmel\CG7470 Dmel\CG7580 Dmel\CG7848 Dmel\CG7964 Dmel\CG7969 Dmel\CG7998 Dmel\CG8080 Dmel\CG8728 Dmel\CG8888 Dmel\CG9140 Dmel\CG9244 Dmel\CG9577 E1 E1-PDH E3 EG:100G10.7 EG:171D11.4 EG:65F1.3 EMRE FUM FeCh Fuh Fum Fum1 G-Sbeta GH07925p GH20910p Gdh Glud HMGS HmgD Hmgs Hsc5 Hsc70-5 Hsp60A HtrA2 I(2)06225 Idh3a IleRS-m L(1)G0334 L(1)g0334 L7 L7/12A L7/L12 Lon M-Acon MDH MDH-2 MDH2 ME MEN MRP-S2 MRPP2 Mdh Mdh-NADP Mdh2 Me Men Men-b Menl-1 Menl-2 Mrp17 NB6M ND-30 ND-51 ND-75 ND-B16.6 ND-B8 ND51 ND75 NDUFS3 NDUFV1 NI8M NUBM Nadk2 Nc73EF Nc73eF OGDH Ogdh Omi/HtrA2 Oscp Ov25 P5CS PDH PDH-E1 PDHE1 PDHalpha Pdh Pdha Pdhb Pdk Pka-C1 Q9VLC5 Q9VMB9 Q9VVH5 SCOT SPG7 ScsbetaG Spg7 SucB Sucb TMABADH Twinkle UCR2 UCRQ UQCR UQCR-C2 UQCR-Q UQCRC2 Vb YME1L acon aconitase alas alpha-KGDH-E1 anon-3Ba anon-EST:Posey10 anon-EST:Posey143 anon-EST:Posey245 anon-EST:Posey79 anon-WO0118547.187 anon-WO0118547.278 anon-WO0118547.329 anon-WO0118547.367 arg blw cox5B dNDUFA2 dNDUFV1 dNDUFV1A dOgdh dP5CS dUQCRC2 hsp60 i204 i59 kdn l (1) G0334 l(1)G0030 l(1)G0126 l(1)G0156 l(1)G0247 l(1)G0255 l(1)G0255-RA l(1)G0290 l(1)G0334 l(1)G0334-RC l(1)G0386 l(2)06214 l(2)06225 l(2)07054 l(3)10534 l(3)j4B2 l(3)psg7 l(3)rL424 lopo m-Acon m-acon mACON mAc mAcon mAcon1 mMdh mRpL12 mRpL32 mRpL7-L12 mRpS10 mRpS2 mdh2 mem men mt:ATPase6 mt:CoI mtDNA-helicase mtSSB pdha psg7 scu sesB sro sucB sucb
Phase I - Functionalization of compounds	Aldehyde dehydrogenase type III, isoform Q Aryl hydrocarbon receptor nuclear translocator homolog Carboxylic ester hydrolase Carboxylic ester hydrolase Carboxylic ester hydrolase Cytochrome P450 18a1 Cytochrome P450 306a1 Cytochrome b5 Epoxide hydrolase Epoxide hydrolase Epoxide hydrolase Esterase P Esterase-6 FI02892p FI07666p FI17410p1 GEO11555p1 Spineless, isoform C Uncharacterized protein, isoform B Uncharacterized protein, isoform D cytochrome-b5 reductase	A0A0C4DHC8 A0A6M3QH83 A1Z803 A1ZA97 A1ZA98 E1JIM6 O15945 P08171 P18167 Q7JRC3 Q7K1W4 Q7KB18 Q8IRR0 Q95078 Q9V4N3 Q9VD00 Q9VLA3 Q9VUZ3 Q9VWK8 Q9VWR5 Q9Y141	142196_at AHR ALDH ALDH-III ARNT AhR Aldh-III AldhIII BEST:GH06241 BcDNA.GH05741 BcDNA:GH05741 BcDNA:RH45308 CG1665-RA CG4382-RB CG5377-RA CT34977 CT41571 CYP18 Cyp18a1 Cyp306a1 Cyt-b5 Dhap DmEH DmJhe Dmel\CG11140 Dmel\CG12869 Dmel\CG15101 Dmel\CG15102 Dmel\CG15106 Dmel\CG1665 Dmel\CG3566 Dmel\CG4382 Dmel\CG4757 Dmel\CG5157 Dmel\CG5377 Dmel\CG6993 Dmel\CG7914 Dmel\CG8424 Dmel\CG8425 EST6 Eig17-1 Est-6 Est-P EstP FALDH GH05702 GH05741 HIF-1-beta IP19920p JH JHE JHEH JHEdup Jhe Jhedup Jhedup-RA Jheh Jheh1 Jheh2 Jheh3 Marc SS Ss jhe jhedup jheh2 l(2)03610 mArc phtm ss ssa tgo
Synthesis of IP2, IP, and Ins in the cytosol	EG Inositol oxygenase Inositol polyphosphate 1-phosphatase Inositol-1-monophosphatase Inositol-1-monophosphatase Inositol-1-monophosphatase Inositol-1-monophosphatase Inositol-1-monophosphatase Inositol-3-phosphate synthase Uncharacterized protein, isoform C inositol-phosphate phosphatase inositol-polyphosphate 5-phosphatase phosphatidylinositol-3,4-bisphosphate 4-phosphatase phosphoinositide 5-phosphatase	B7Z0Q2 M9PHS8 O46094 O97477 Q5U0V7 Q7KTW5 Q9VFP6 Q9VP62 Q9VTU9 Q9VUW1 Q9VUW2 Q9VUW3 Q9VUW4 Q9VY47	142335_at 142336_at 152392_at 5PtaseI BcDNA:RE64196 CG17026-RA CG1846 CG31107 CG31110 CG33248 CG33249 CG7613 Dmel\CG17026 Dmel\CG17027 Dmel\CG17028 Dmel\CG17029 Dmel\CG3028 Dmel\CG3573 Dmel\CG42271 Dmel\CG42283 Dmel\CG6562 Dmel\CG6910 Dmel\CG9389 Dmel\CG9391 Dmel\CG9784 EG:86E4.5 FBgn0259166 IMP INPP4A IPP IPPase Inos Ipp Miox Ocrl Synj anon-WO02059370.48 cg17026 dOCRL dOcrl dm5PtaseI docrl ipp lincRNA.S9473 ocrl synaptojanin synj
Oxidative Stress Induced Senescence	Apoptotic signal-regulating kinase 1, isoform C Chromatin assembly factor 1 p55 subunit E3 ubiquitin-protein ligase RING1 Escl, isoform A Histone H2A.v Histone H2A Histone H2A Histone H2B Histone H3.3A Histone H3.3B Histone H3 Histone H4 Histone-lysine N-methyltransferase E(z) LD02225p MAP kinase-activated protein kinase 2 Mitogen-activated protein kinase ERK-A Mitogen-activated protein kinase p38a Mitogen-activated protein kinase p38b Polycomb group protein Pc Polycomb group protein Psc Polycomb protein Scm Polycomb protein Su(z)12 Polyhomeotic distal, isoform A Polyhomeotic-proximal chromatin protein Putative mitogen-activated protein kinase 14C Stress-activated protein kinase JNK Thioredoxin-2 Transcription factor Jra Transcription factor kayak, isoforms A/B/F mitogen-activated protein kinase kinase mitogen-activated protein kinase kinase non-specific serine/threonine protein kinase	C0HL66 C0HL67 O61443 O61444 O62602 O62618 P02283 P02299 P08985 P18289 P21525 P26017 P35820 P39769 P40417 P42124 P49071 P83100 P84040 P84051 P92208 Q24572 Q4AB57 Q9NJG9 Q9V429 Q9VB08 Q9VDS9 Q9VHA0 Q9VKD5 Q9VL07 Q9W002 Q9W523	142758_at 6286 ASK1 Ask1 CG5202-PA CT27508 Caf1 Caf1-55 D-ASK D-MKK3 D-MKK4 DASK DASK1 DMEK3 DMKK3 DMKK3/lic DMKK4 DMSN DPk92B/ASK1 DROZFP DmMKK3 Dmel\CG12244 Dmel\CG16973 Dmel\CG33853 Dmel\CG33856 Dmel\CG33859 Dmel\CG3895 Dmel\CG4720 Dmel\CG5202 Dmel\CG5640 Dmel\CG9738 E(z) EG:BACN25G24.3 ERKa ESC ESC-LIKE ESC1 ESCL Escl Fra H2AvD H2a H4 H4r HGK His2A His2A:CG31618 His2A:CG33808 His2A:CG33814 His2A:CG33817 His2A:CG33820 His2A:CG33823 His2A:CG33826 His2A:CG33829 His2A:CG33832 His2A:CG33835 His2A:CG33838 His2A:CG33841 His2A:CG33844 His2A:CG33847 His2A:CG33850 His2A:CG33853 His2A:CG33856 His2A:CG33859 His2A:CG33862 His2A:CG33865 His2Av His2AvD His2B His2B:CG17949 His2B:CG33868 His2B:CG33870 His2B:CG33872 His2B:CG33874 His2B:CG33876 His2B:CG33878 His2B:CG33880 His2B:CG33882 His2B:CG33884 His2B:CG33886 His2B:CG33888 His2B:CG33890 His2B:CG33892 His2B:CG33894 His2B:CG33896 His2B:CG33898 His2B:CG33900 His2B:CG33902 His2B:CG33904 His2B:CG33906 His2B:CG33908 His2B:CG33910 His3 His3.3A His3.3B His3:CG31613 His3:CG33803 His3:CG33806 His3:CG33809 His3:CG33812 His3:CG33815 His3:CG33818 His3:CG33821 His3:CG33824 His3:CG33827 His3:CG33830 His3:CG33833 His3:CG33836 His3:CG33839 His3:CG33842 His3:CG33845 His3:CG33848 His3:CG33851 His3:CG33854 His3:CG33857 His3:CG33860 His3:CG33863 His3:CG33866 His4 His4:CG31611 His4:CG33869 His4:CG33871 His4:CG33873 His4:CG33875 His4:CG33877 His4:CG33879 His4:CG33881 His4:CG33883 His4:CG33885 His4:CG33887 His4:CG33889 His4:CG33891 His4:CG33893 His4:CG33895 His4:CG33897 His4:CG33899 His4:CG33901 His4:CG33903 His4:CG33905 His4:CG33907 His4:CG33909 His4r JNK JNKK2 JNKKKK Jra KMT6 MAPK MAPKK4 MAPk-Ak2 MEK3 MEK3/MKK3 MEKK5/ASK1 MESR5 MKK3 MKK4 MSN Mek3 Mkk3 Mkk4 Mpk2 Mpk3 Mpk4 Msn NIK Nik P-MKK4 PH PH-d PHD Pc Ph Ph-d PhD Pk92B Psc SEK1/MKK4 Sce Scm Su(z)12 Trx-2 UTX Utx anon-31BCa bsk dASK dASK1 dAsk1 dMKK3 dMKK4 dMkk4 dUTX dUtx escl jun kay l(1)G0252 l(3)03349 l(3)06946 l(3)6286 l(3)j1E2 lic mkk4 msm msn p38 p38MAPKK p38a p38b p38c ph ph-D ph-d ph-p ph[D] ph[d] phd phm pk92B rl utx
FCERI mediated MAPK activation	1-phosphatidylinositol 4,5-bisphosphate phosphodiesterase gamma DShc protein Growth factor receptor-bound protein 2 Mitogen-activated protein kinase ERK-A Protein son of sevenless Protein vav RH14395p Ras-like protein 1 Ras-related protein Rac1 Serine/threonine-protein kinase Pak Stress-activated protein kinase JNK Transcription factor Jra Transcription factor kayak, isoforms A/B/F mitogen-activated protein kinase kinase non-specific serine/threonine protein kinase	A0A0B4KGS4 O61444 P08646 P18289 P21525 P26675 P40417 P40792 P92208 Q08012 Q9NHV9 Q9V3C8 Q9VAA1 Q9VI13 Q9VXH3	142758_at CT27508 D-MKK4 D-Pak3 D-Shc DMKK4 DPAK DPAK3 DPLCgamma DPak3 DSHC DmPAK3 Dmel\CG14895 Dmel\CG15529 Dmel\CG3715 Dmel\CG4200 Dmel\CG9738 Dpak1 Dpak3 E(sev)2B ERKa Fra Grb2 JNK JNKK2 Jra MAPK MAPKK4 MKK4 Mkk4 Mpk4 P-MKK4 PAK-3 PAK3 PLC PLC&ygr: PLC-gamma PLC-gamma D PLC-gammaD PLCgamma PLCgamma1 PLCgammaDmel PaK3 Pak Pak3 Plcgamma Rac1 RacA Ras1 Ras85D SEK1/MKK4 Shc Shc-RA Sl Sos Vav anon-WO0118547.285 bsk dMKK4 dMkk4 dPAK3 dShc dpak3 drk dshc jun kay mkk4 p145 pak3 plc-gamma plc-gammad rl shc sl
Gap-filling DNA repair synthesis and ligation in TC-NER	CDK-activating kinase assembly factor MAT1 Cullin 4, isoform A Cyclin-H Cyclin-dependent kinase 7 DNA damage-binding protein 1 DNA ligase 1 DNA ligase DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 FI04011p GEO08380p1 GEO11084p1 GH07456p GH17761p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit LD35209p Polyubiquitin Pre-mRNA-processing factor 19 Pre-mRNA-splicing factor syf1 homolog RE31520p RING-box protein 1A RPB5 homolog Replication factor A protein 2 Replication factor C 38kD subunit, isoform A Replication factor C subunit 1 Replication factor C subunit 2 Replication factor C subunit 3 Replication protein A 70 kDa DNA-binding subunit Transcription elongation factor S-II Ubiquitin carboxyl-terminal hydrolase 7 Ubiquitin-like domain-containing protein Ubiquitin-ribosomal protein eS31 fusion protein Uncharacterized protein, isoform D Zinc finger protein 830	A1Z9G2 B7Z018 O76513 O97183 P04052 P08266 P0CG69 P15357 P20232 P35600 P36958 P53034 Q02870 Q24216 Q24320 Q24492 Q5BI50 Q6IGE3 Q7JZF5 Q7KLW9 Q7KPG8 Q7KSN8 Q7KVP9 Q960E8 Q9U9Q1 Q9VBY5 Q9VC49 Q9VEA5 Q9VFB5 Q9VG84 Q9VHV6 Q9VIH1 Q9VJE4 Q9VKW3 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VUR1 Q9VX15 Q9VYQ8 Q9VYW3 Q9W1H4 Q9W418 Q9W5E1 Q9XYZ5 Q9Y095 R9PY16	142767_at 152117_at 153194_at 154538_at 4208 AT-1 BG:DS00941.10 BcDNA.LD02793 BcDNA:LD02793 BcDNA:LD06837 BcDNA:RH55360 CCNH CD 7 CDK7 CG14037 CG14729 CG14730 CG18282 CG6572 CR11700 CR32744 CT36969 CUL4 Cdk7 Cul-4 Cul4 Cullin4 CycH D-SSB D-rpII33 DDB1 DMcul-4 DNA-ligI DNA-ligII DNAlig1 DNAlig3 DRFC DRP-A DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRFC2 DmRFC3 DmRFC5 DmRP-A DmRPA DmRPB5 DmSII DmUb DmUbi-p5E DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11700 Dmel\CG11839 Dmel\CG11979 Dmel\CG15220 Dmel\CG17227 Dmel\CG31155 Dmel\CG31368 Dmel\CG32744 Dmel\CG3319 Dmel\CG34186 Dmel\CG4208 Dmel\CG42373 Dmel\CG5041 Dmel\CG5313 Dmel\CG5519 Dmel\CG6258 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG8142 Dmel\CG8711 Dmel\CG9273 Dmel\CG9433 Dmel\CG9667 Dmp34 Dmp52 Dmp8 EC2-11 ERCC2 ERCC3 ESTS:143G11T ESTS:199A6T GPB Gbp Gnf1 ISY1 LIG3 Lig3 MAT1 Mat1 Mo15 PRP19 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L Prp19 RFC2 RNA Pol II RNA pol II RNA polII RNAP RP-A RP140 RPA RPA 30 kDa RPA1 RPA2 RPA3 RPA30 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RfC RfC3 RfC38 RfC4 RfC40 Rfc3 Rfc37 Rfc38 Roc1a RpA-30 RpA2 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 RpS27A Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 Ssb-30 Ssl1 TFB2 TFB4 TFB5 TFB5 (uORF) TTDA TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB UB UB3-D UBI-F80 Ub Ubi Ubi-m Ubi-p5E Ubi-p5E5 Ubi-p63E Ubiq Ubiquitin Usp7 XPD XPD/ERCC2 XRCC1 XRCC1-RA Xpd Xrcc1 Znf830 anon-WO0118547.648 anon-sts41 br17 cdk-7 cdk7 cul-4 cul-4-RA cul4 dCdk7 dCul4 dPrp19 dRP-A dRPA2 dRpb7 fand fas hay l(1)G0241 l(2)07838 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(2)k13807 l(2)rfc38 l(3)E35 l34Dg lig 3 lig3 lig3-RA lincRNA.843 mrn ms(3)nc16 n(2)k13807 nc16 p34 p40[MO15] p44 p52 p8 pic pol II polII poly-ub prp19 rfc3 rfc38 rpII33 rpb3 ssl1 uORF xpd
Dual incision in TC-NER	CDK-activating kinase assembly factor MAT1 Cullin 4, isoform A Cyclin-H Cyclin-dependent kinase 7 DNA damage-binding protein 1 DNA polymerase epsilon catalytic subunit 1 DNA polymerase epsilon subunit 2 DNA polymerase epsilon subunit 3 DNA polymerase epsilon subunit 4 DNA repair endonuclease XPF DNA repair protein complementing XP-A cells homolog DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 Ercc1 GEO08380p1 GEO11084p1 GH07456p GH17761p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit LD35209p Polyubiquitin Pre-mRNA-processing factor 19 Pre-mRNA-splicing factor syf1 homolog Proliferating cell nuclear antigen RE31520p RING-box protein 1A RPB5 homolog Replication factor A protein 2 Replication factor C 38kD subunit, isoform A Replication factor C subunit 1 Replication factor C subunit 2 Replication factor C subunit 3 Replication protein A 70 kDa DNA-binding subunit Transcription elongation factor S-II Ubiquitin carboxyl-terminal hydrolase 7 Ubiquitin-like domain-containing protein Ubiquitin-ribosomal protein eS31 fusion protein Uncharacterized protein, isoform D Zinc finger protein 830	A1Z9G2 B7Z018 O76513 O97183 P04052 P08266 P0CG69 P15357 P17917 P20232 P28518 P35600 P36958 P53034 Q02870 Q24087 Q24216 Q24320 Q24492 Q5BI50 Q6IGE3 Q7JZF5 Q7KLW9 Q7KMG7 Q7KPG8 Q7KSN8 Q7KVP9 Q960E8 Q9U9Q1 Q9V444 Q9VBY5 Q9VC49 Q9VCN1 Q9VEA5 Q9VFB5 Q9VHV6 Q9VIH1 Q9VJE4 Q9VKW3 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VRQ7 Q9VUR1 Q9VX15 Q9VYQ8 Q9VYW3 Q9W256 Q9W418 Q9W5E1 Q9XYZ5 R9PY16	142767_at 152117_at 153194_at 154538_at AT-1 BG:DS00941.10 BcDNA.LD02793 BcDNA:LD02793 BcDNA:LD06837 BcDNA:RH55360 CCNH CD 7 CDK7 CG14037 CG14729 CG14730 CG18282 CG6572 CHRAC CHRAC14 CR11700 CR32744 CT36969 CUL4 Cdk7 Chrac-14 Cul-4 Cul4 Cullin4 CycH D-SSB D-rpII33 DDB1 DMcul-4 DNApol-epsilon DNApol-epsilon255 DNApol-epsilon58 DNApolE2 DNApolE3 DNApolE4 DRFC DRP-A DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRFC2 DmRFC3 DmRFC5 DmRP-A DmRPA DmRPB5 DmSII DmUb DmUbi-p5E DmXPD Dmcdk7 Dmel\CG10215 Dmel\CG11115 Dmel\CG11246 Dmel\CG11700 Dmel\CG11839 Dmel\CG11979 Dmel\CG15220 Dmel\CG31155 Dmel\CG31368 Dmel\CG32744 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG5041 Dmel\CG5313 Dmel\CG5519 Dmel\CG6258 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG8142 Dmel\CG8711 Dmel\CG9273 Dmel\CG9433 Dmel\CG9667 Dmp34 Dmp52 Dmp8 EC2-11 ERCC1 ERCC2 ERCC3 ESTS:143G11T ESTS:199A6T Ercc1 GPB Gbp Gnf1 ISY1 MAT1 Mat1 Mes4 Mo15 NF-Yc PCNA PCNA1 PRP19 Pol II Pol II RPII33 PolE1 PolE2 PolE4 PolII PolIIo Polepsilon Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L Prp19 RFC2 RNA Pol II RNA pol II RNA polII RNAP RP-A RP140 RPA RPA 30 kDa RPA1 RPA2 RPA3 RPA30 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RfC RfC3 RfC38 RfC4 RfC40 Rfc3 Rfc37 Rfc38 Roc1a RpA-30 RpA2 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 RpS27A Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 Ssb-30 Ssl1 TFB2 TFB4 TFB5 TFB5 (uORF) TTDA TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB UB UB3-D UBI-F80 Ub Ubi Ubi-m Ubi-p5E Ubi-p5E5 Ubi-p63E Ubiq Ubiquitin Usp7 XPD XPD/ERCC2 Xpa Xpac Xpd Znf830 anon-WO0118547.648 anon-sts41 br17 cdk-7 cdk7 cul-4 cul-4-RA cul4 dCdk7 dCul4 dPrp19 dRP-A dRPA2 dRpb7 ercc1 fand fas hay l(1)G0241 l(2)07838 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(2)k13807 l(2)rfc38 l(3)E35 l(3)pl10 l(3)pl10R l34Dg lincRNA.843 mary mei-9 mrn ms(3)nc16 mus209 n(2)k13807 nc16 p34 p40[MO15] p44 p52 p8 pic pol II polII poly-ub prp19 rfc3 rfc38 rpII33 rpb3 ssl1 uORF xpd
RNA Polymerase II Pre-transcription Events	AF4/FMR2 family member lilli Another transcription unit protein Bip2 CDK-activating kinase assembly factor MAT1 Ctr9, isoform A Cyclin K, isoform A Cyclin-H Cyclin-T Cyclin-dependent kinase 7 Cyclin-dependent kinase 9 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 Ell-associated factor Eaf Elongin B Elongin-C FACT complex subunit Ssrp1 FACT complex subunit spt16 GEO07843p1 GEO11084p1 GH07456p GH11150p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Hyrax LD16387p Negative elongation factor A Negative elongation factor B Negative elongation factor D Negative elongation factor E Nuclear cap-binding protein subunit 1 Nuclear cap-binding protein subunit 2 RNA polymerase II elongation factor Ell RNA polymerase II subunit A C-terminal domain phosphatase RNA polymerase II-associated factor 1 homolog RNA-binding protein cabeza RPB5 homolog TATA-box-binding protein TBP-related factor Transcription elongation factor B polypeptide 3 Transcription elongation factor S-II Transcription elongation factor SPT4 Transcription elongation factor SPT5 Transcription elongation factor SPT6 Transcription initiation factor IIA subunit 1 Transcription initiation factor IIA subunit 2 Transcription initiation factor IIB Transcription initiation factor IIE subunit beta Transcription initiation factor TFIID subunit 10b Transcription initiation factor TFIID subunit 11 Transcription initiation factor TFIID subunit 12 Transcription initiation factor TFIID subunit 1 Transcription initiation factor TFIID subunit 2 Transcription initiation factor TFIID subunit 4 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 6 Transcription initiation factor TFIID subunit 7 Transcription initiation factor TFIID subunit 9 Uncharacterized protein, isoform B Uncharacterized protein	A8JV07 B7Z018 O17432 O44226 O76513 O96433 O96880 O96881 O97183 P04052 P08266 P20227 P20232 P29052 P36958 P41900 P47825 P49846 P49847 P49905 P49906 P51123 P52654 P52656 P92204 Q02870 Q05344 Q05913 Q24134 Q24216 Q24320 Q24325 Q27272 Q27294 Q27896 Q6IGE3 Q7JRJ1 Q7JWD6 Q7JZF5 Q7K0X3 Q7K4N3 Q7KPG8 Q7KVP9 Q86NP2 Q8IRG6 Q94546 Q960E8 Q961D1 Q9TVQ5 Q9V3L6 Q9V460 Q9V4D4 Q9VC49 Q9VCN9 Q9VCP0 Q9VEA5 Q9VFB5 Q9VHI1 Q9VHY5 Q9VIP1 Q9VJE4 Q9VN55 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VQI9 Q9VT91 Q9VUR1 Q9VW51 Q9W147 Q9W420 Q9XZ19 Q9XZT7 Q9Y113	142767_at 152117_at 154538_at 21483550 38B.15 AT-1 Atms Atu BG:DS00941.10 BIP2 BTF1 BcDNA:LD21537 BcDNA:RH71704 Bip2 CCNH CD 7 CDK7 CDK9 CF5 CG14037 CG3039 CG6572 Can Cbp20 Cbp80 Cdc73 Cdk7 Cdk9 Ctr9 CycH CycK CycT D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmFcp1 DmMO15 DmMo15 DmP-TEFb DmRPB5 DmSII DmTAF3 DmXPD Dmcdk7 Dmel\CG10415 Dmel\CG10756 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG11990 Dmel\CG12252 Dmel\CG1276 Dmel\CG15218 Dmel\CG2009 Dmel\CG2469 Dmel\CG2503 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG3909 Dmel\CG4204 Dmel\CG42373 Dmel\CG4448 Dmel\CG5041 Dmel\CG5179 Dmel\CG6577 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9291 Dmel\CG9433 Dmel\CG9915 Dmfcp1 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 E[[S]] Eaf Ell Elo-B EloA EloB EloC Elongin-B Elongin-C ElonginC Fcp1 Hyx MAT1 Mat1 Mo15 NELF-B NELF-D Nelf-A Nelf-E P-TEF P-TEFb PAF PAF1 PTefb Paf1 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SARFH SS2-1 SSL1 SSRP1 Ski8 Spt5 Spt6 Ssl1 Ssrp Su(Raf)2A Su(Tpl) TAF TAF110 TAF13 TAF150 TAF155 TAF18 TAF250 TAF3 TAF30-ALPHA TAF30-BETA TAF40 TAF5 TAF55 TAF5L TAF80 TAFII155 TAFII40 TAF[[II]] TAF[[II]]155 TAF[[II]]18 TFB2 TFB4 TFB5 TFB5 (uORF) TFIID TFIIE TFIIE-L TFIIEalpha TFIIEbeta TFIIF30 TFIIbeta TH1 TTDA Taf1 Taf10b Taf11 Taf12 Taf13 Taf16 Taf18 Taf2 Taf3 Taf4 Taf5 Taf5L Taf6 Taf60 Taf7 Taf9 Tbp TfIIA-L TfIIA-S TfIIB TfIIE TfIIE-alpha TfIIE-beta TfIIEa TfIIEalpha TfIIEbeta TfIIFalpha TfIIFbeta TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB Trf WDA WFA WSB-1 WSB1 Wda XPD XPD/ERCC2 Xpd anon-66Da anon-84Ec anon-WO0118547.648 anon-WO0172774.113 anon-WO0172774.114 anon-WO0172774.116 atms bip-II bip2 br17 can caz cdk-7 cdk7 cdk9 cg2469 cycK dBIP2 dCDC73 dCdk7 dCtr9 dElongin C dPaf1 dRpb7 dSki8 dTAF5L dTAFII3 dTAF[[II]]155 dTAF[[II]]18 dTAF[[II]]80 dTFIIE-L dTFIIE-S dTFIIEL dTFIIES dWda dmTAF3 dmTAF5b dre4 e(y)1 fcp1 hay hyx hyx/CDC73 i163 i31 l(2)00632 l(2)34Dg l(2)SH1279 l(2)SH1299 l(2)SH1520 l(2)SH2 1279 l(2)SH2 1520 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)01456 l(3)02466 l(3)E35 l(3)rK509 l34Dg lilli lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 spt16 spt4 ssl1 taf13 taf3 taf5L uORF wda xpd
Formation of RNA Pol II elongation complex	AF4/FMR2 family member lilli Another transcription unit protein CDK-activating kinase assembly factor MAT1 Ctr9, isoform A Cyclin K, isoform A Cyclin-H Cyclin-T Cyclin-dependent kinase 7 Cyclin-dependent kinase 9 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 Ell-associated factor Eaf Elongin B Elongin-C FACT complex subunit Ssrp1 FACT complex subunit spt16 GEO11084p1 GH07456p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Hyrax Negative elongation factor A Negative elongation factor B Negative elongation factor D Negative elongation factor E RNA polymerase II elongation factor Ell RNA polymerase II subunit A C-terminal domain phosphatase RNA polymerase II-associated factor 1 homolog RPB5 homolog Transcription elongation factor B polypeptide 3 Transcription elongation factor S-II Transcription elongation factor SPT4 Transcription elongation factor SPT5 Transcription elongation factor SPT6 Uncharacterized protein, isoform B Uncharacterized protein	A8JV07 B7Z018 O17432 O44226 O76513 O96433 O97183 P04052 P08266 P20232 P36958 P41900 P92204 Q02870 Q05344 Q05913 Q24134 Q24216 Q24320 Q6IGE3 Q7JRJ1 Q7JWD6 Q7JZF5 Q7K0X3 Q7KPG8 Q7KVP9 Q86NP2 Q8IRG6 Q94546 Q960E8 Q961D1 Q9TVQ5 Q9V460 Q9VC49 Q9VCP0 Q9VEA5 Q9VFB5 Q9VHI1 Q9VJE4 Q9VN55 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VQI9 Q9VUR1 Q9VW51 Q9W147 Q9W420 Q9XZ19 Q9Y113	142767_at 152117_at 154538_at 21483550 AT-1 Atms Atu BG:DS00941.10 BcDNA:LD21537 BcDNA:RH71704 CCNH CD 7 CDK7 CDK9 CF5 CG14037 CG3039 CG6572 Cdc73 Cdk7 Cdk9 Ctr9 CycH CycK CycT D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmFcp1 DmMO15 DmMo15 DmP-TEFb DmRPB5 DmSII DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG11990 Dmel\CG12252 Dmel\CG15218 Dmel\CG2469 Dmel\CG2503 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG3909 Dmel\CG4204 Dmel\CG42373 Dmel\CG5041 Dmel\CG5179 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9291 Dmel\CG9433 Dmel\CG9915 Dmfcp1 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 Eaf Ell Elo-B EloA EloB EloC Elongin-B Elongin-C ElonginC Fcp1 Hyx MAT1 Mat1 Mo15 NELF-B NELF-D Nelf-A Nelf-E P-TEF P-TEFb PAF PAF1 PTefb Paf1 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SS2-1 SSL1 SSRP1 Ski8 Spt5 Spt6 Ssl1 Ssrp Su(Raf)2A Su(Tpl) TFB2 TFB4 TFB5 TFB5 (uORF) TFIIF30 TH1 TTDA TfIIFalpha TfIIFbeta TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB XPD XPD/ERCC2 Xpd anon-66Da anon-WO0118547.648 anon-WO0172774.113 anon-WO0172774.114 anon-WO0172774.116 atms br17 cdk-7 cdk7 cdk9 cg2469 cycK dCDC73 dCdk7 dCtr9 dElongin C dPaf1 dRpb7 dSki8 dre4 fcp1 hay hyx hyx/CDC73 l(2)00632 l(2)34Dg l(2)SH1279 l(2)SH1299 l(2)SH1520 l(2)SH2 1279 l(2)SH2 1520 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)01456 l(3)02466 l(3)E35 l(3)rK509 l34Dg lilli lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 spt16 spt4 ssl1 uORF xpd
RNA Polymerase II Transcription Elongation	AF4/FMR2 family member lilli Another transcription unit protein CDK-activating kinase assembly factor MAT1 Ctr9, isoform A Cyclin K, isoform A Cyclin-H Cyclin-T Cyclin-dependent kinase 7 Cyclin-dependent kinase 9 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 Ell-associated factor Eaf Elongin B Elongin-C FACT complex subunit Ssrp1 FACT complex subunit spt16 GEO11084p1 GH07456p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Hyrax Negative elongation factor A Negative elongation factor B Negative elongation factor D Negative elongation factor E RNA polymerase II elongation factor Ell RNA polymerase II subunit A C-terminal domain phosphatase RNA polymerase II-associated factor 1 homolog RPB5 homolog Transcription elongation factor B polypeptide 3 Transcription elongation factor S-II Transcription elongation factor SPT4 Transcription elongation factor SPT5 Transcription elongation factor SPT6 Uncharacterized protein, isoform B Uncharacterized protein	A8JV07 B7Z018 O17432 O44226 O76513 O96433 O97183 P04052 P08266 P20232 P36958 P41900 P92204 Q02870 Q05344 Q05913 Q24134 Q24216 Q24320 Q6IGE3 Q7JRJ1 Q7JWD6 Q7JZF5 Q7K0X3 Q7KPG8 Q7KVP9 Q86NP2 Q8IRG6 Q94546 Q960E8 Q961D1 Q9TVQ5 Q9V460 Q9VC49 Q9VCP0 Q9VEA5 Q9VFB5 Q9VHI1 Q9VJE4 Q9VN55 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VQI9 Q9VUR1 Q9VW51 Q9W147 Q9W420 Q9XZ19 Q9Y113	142767_at 152117_at 154538_at 21483550 AT-1 Atms Atu BG:DS00941.10 BcDNA:LD21537 BcDNA:RH71704 CCNH CD 7 CDK7 CDK9 CF5 CG14037 CG3039 CG6572 Cdc73 Cdk7 Cdk9 Ctr9 CycH CycK CycT D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmFcp1 DmMO15 DmMo15 DmP-TEFb DmRPB5 DmSII DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG11990 Dmel\CG12252 Dmel\CG15218 Dmel\CG2469 Dmel\CG2503 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG3909 Dmel\CG4204 Dmel\CG42373 Dmel\CG5041 Dmel\CG5179 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9291 Dmel\CG9433 Dmel\CG9915 Dmfcp1 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 Eaf Ell Elo-B EloA EloB EloC Elongin-B Elongin-C ElonginC Fcp1 Hyx MAT1 Mat1 Mo15 NELF-B NELF-D Nelf-A Nelf-E P-TEF P-TEFb PAF PAF1 PTefb Paf1 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SS2-1 SSL1 SSRP1 Ski8 Spt5 Spt6 Ssl1 Ssrp Su(Raf)2A Su(Tpl) TFB2 TFB4 TFB5 TFB5 (uORF) TFIIF30 TH1 TTDA TfIIFalpha TfIIFbeta TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB XPD XPD/ERCC2 Xpd anon-66Da anon-WO0118547.648 anon-WO0172774.113 anon-WO0172774.114 anon-WO0172774.116 atms br17 cdk-7 cdk7 cdk9 cg2469 cycK dCDC73 dCdk7 dCtr9 dElongin C dPaf1 dRpb7 dSki8 dre4 fcp1 hay hyx hyx/CDC73 l(2)00632 l(2)34Dg l(2)SH1279 l(2)SH1299 l(2)SH1520 l(2)SH2 1279 l(2)SH2 1520 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)01456 l(3)02466 l(3)E35 l(3)rK509 l34Dg lilli lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 spt16 spt4 ssl1 uORF xpd
TP53 Regulates Transcription of DNA Repair Genes	CDK-activating kinase assembly factor MAT1 Cyclin K, isoform A Cyclin-H Cyclin-T Cyclin-dependent kinase 12 Cyclin-dependent kinase 7 Cyclin-dependent kinase 9 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 Elongin B Elongin-C FACT complex subunit Ssrp1 FACT complex subunit spt16 GEO11084p1 GH07456p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Negative elongation factor A Negative elongation factor B Negative elongation factor D Negative elongation factor E RNA polymerase II elongation factor Ell RNA polymerase II subunit A C-terminal domain phosphatase RPB5 homolog Transcription elongation factor B polypeptide 3 Transcription elongation factor S-II Transcription elongation factor SPT4 Transcription elongation factor SPT5	B7Z018 O17432 O44226 O76513 O96433 O97183 P04052 P08266 P20232 P36958 P41900 P92204 Q02870 Q05344 Q05913 Q24134 Q24216 Q24320 Q6IGE3 Q7JWD6 Q7JZF5 Q7KPG8 Q7KVP9 Q86NP2 Q8IRG6 Q960E8 Q961D1 Q9TVQ5 Q9V460 Q9VC49 Q9VCP0 Q9VEA5 Q9VFB5 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VP22 Q9VPX4 Q9VUR1 Q9VW51 Q9W147 Q9Y113	142767_at 152117_at 154538_at 21483550 AT-1 BG:DS00941.10 BcDNA:RH71704 CCNH CD 7 CDK7 CDK9 CF5 CG14037 CG6572 Cdk12 Cdk7 Cdk9 CycH CycK CycT D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmFcp1 DmMO15 DmMo15 DmP-TEFb DmRPB5 DmSII DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG12252 Dmel\CG15218 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG4204 Dmel\CG42373 Dmel\CG5041 Dmel\CG5179 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9291 Dmel\CG9433 Dmfcp1 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 Ell Elo-B EloA EloB EloC Elongin-B Elongin-C ElonginC Fcp1 MAT1 Mat1 Mo15 NELF-B NELF-D Nelf-A Nelf-E P-TEF P-TEFb PTefb Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 SSRP1 Spt5 Ssl1 Ssrp Su(Tpl) TFB2 TFB4 TFB5 TFB5 (uORF) TFIIF30 TH1 TTDA TfIIFalpha TfIIFbeta TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB XPD XPD/ERCC2 Xpd anon-66Da anon-WO0118547.648 br17 cdk-7 cdk7 cdk9 cycK dCdk7 dElongin C dRpb7 dre4 fcp1 hay l(2)34Dg l(2)SH1279 l(2)SH1299 l(2)SH1520 l(2)SH2 1279 l(2)SH2 1520 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 spt16 spt4 ssl1 uORF xpd
Formation of the Early Elongation Complex	CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO11084p1 GH07456p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Negative elongation factor A Negative elongation factor B Negative elongation factor D Negative elongation factor E Nuclear cap-binding protein subunit 1 Nuclear cap-binding protein subunit 2 RNA polymerase II subunit A C-terminal domain phosphatase RPB5 homolog Transcription elongation factor SPT4 Transcription elongation factor SPT5	B7Z018 O76513 O97183 P04052 P08266 P36958 P41900 P92204 Q02870 Q05913 Q24134 Q24216 Q24320 Q6IGE3 Q7JZF5 Q7K4N3 Q7KPG8 Q7KVP9 Q86NP2 Q960E8 Q9TVQ5 Q9V3L6 Q9V460 Q9VC49 Q9VEA5 Q9VFB5 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VUR1 Q9W147 Q9Y113	142767_at 152117_at 154538_at 21483550 AT-1 BG:DS00941.10 CCNH CD 7 CDK7 CG14037 CG6572 Cbp20 Cbp80 Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmFcp1 DmMO15 DmMo15 DmRPB5 DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG12252 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG5041 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmfcp1 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 Fcp1 MAT1 Mat1 Mo15 NELF-B NELF-D Nelf-A Nelf-E Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 Spt5 Ssl1 TFB2 TFB4 TFB5 TFB5 (uORF) TFIIF30 TH1 TTDA TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB XPD XPD/ERCC2 Xpd anon-66Da anon-WO0118547.648 br17 cdk-7 cdk7 dCdk7 dRpb7 fcp1 hay l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 spt4 ssl1 uORF xpd
RNA Polymerase II Transcription Pre-Initiation And Promoter Opening	Bip2 CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO07843p1 GEO11084p1 GH07456p GH11150p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit LD16387p RNA-binding protein cabeza RPB5 homolog TATA-box-binding protein TBP-related factor Transcription initiation factor IIA subunit 1 Transcription initiation factor IIA subunit 2 Transcription initiation factor IIB Transcription initiation factor IIE subunit beta Transcription initiation factor TFIID subunit 10b Transcription initiation factor TFIID subunit 11 Transcription initiation factor TFIID subunit 12 Transcription initiation factor TFIID subunit 1 Transcription initiation factor TFIID subunit 2 Transcription initiation factor TFIID subunit 4 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 6 Transcription initiation factor TFIID subunit 7 Transcription initiation factor TFIID subunit 9	B7Z018 O76513 O96880 O96881 O97183 P04052 P08266 P20227 P29052 P36958 P41900 P47825 P49846 P49847 P49905 P49906 P51123 P52654 P52656 Q02870 Q05913 Q24216 Q24320 Q24325 Q27272 Q27294 Q27896 Q6IGE3 Q7JZF5 Q7KPG8 Q7KVP9 Q960E8 Q9V4D4 Q9VC49 Q9VCN9 Q9VEA5 Q9VFB5 Q9VHY5 Q9VIP1 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VT91 Q9VUR1 Q9XZT7	142767_at 152117_at 154538_at 38B.15 AT-1 BG:DS00941.10 BIP2 BTF1 Bip2 CCNH CD 7 CDK7 CG14037 CG6572 Can Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmTAF3 DmXPD Dmcdk7 Dmel\CG10415 Dmel\CG10756 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG1276 Dmel\CG2009 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG4448 Dmel\CG5041 Dmel\CG6577 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 E[[S]] MAT1 Mat1 Mo15 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SARFH SSL1 Ssl1 TAF TAF110 TAF13 TAF150 TAF155 TAF18 TAF250 TAF3 TAF30-ALPHA TAF30-BETA TAF40 TAF5 TAF55 TAF5L TAF80 TAFII155 TAFII40 TAF[[II]] TAF[[II]]155 TAF[[II]]18 TFB2 TFB4 TFB5 TFB5 (uORF) TFIID TFIIE TFIIE-L TFIIEalpha TFIIEbeta TFIIF30 TFIIbeta TTDA Taf1 Taf10b Taf11 Taf12 Taf13 Taf16 Taf18 Taf2 Taf3 Taf4 Taf5 Taf5L Taf6 Taf60 Taf7 Taf9 Tbp TfIIA-L TfIIA-S TfIIB TfIIE TfIIE-alpha TfIIE-beta TfIIEa TfIIEalpha TfIIEbeta TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB Trf WDA WFA WSB-1 WSB1 Wda XPD XPD/ERCC2 Xpd anon-84Ec anon-WO0118547.648 bip-II bip2 br17 can caz cdk-7 cdk7 dBIP2 dCdk7 dRpb7 dTAF5L dTAFII3 dTAF[[II]]155 dTAF[[II]]18 dTAF[[II]]80 dTFIIE-L dTFIIE-S dTFIIEL dTFIIES dWda dmTAF3 dmTAF5b e(y)1 hay i163 i31 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 ssl1 taf13 taf3 taf5L uORF wda xpd
RNA Polymerase II Transcription Initiation And Promoter Clearance	Bip2 CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO07843p1 GEO11084p1 GH07456p GH11150p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit LD16387p RNA-binding protein cabeza RPB5 homolog TATA-box-binding protein TBP-related factor Transcription initiation factor IIA subunit 1 Transcription initiation factor IIA subunit 2 Transcription initiation factor IIB Transcription initiation factor IIE subunit beta Transcription initiation factor TFIID subunit 10b Transcription initiation factor TFIID subunit 11 Transcription initiation factor TFIID subunit 12 Transcription initiation factor TFIID subunit 1 Transcription initiation factor TFIID subunit 2 Transcription initiation factor TFIID subunit 4 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 6 Transcription initiation factor TFIID subunit 7 Transcription initiation factor TFIID subunit 9	B7Z018 O76513 O96880 O96881 O97183 P04052 P08266 P20227 P29052 P36958 P41900 P47825 P49846 P49847 P49905 P49906 P51123 P52654 P52656 Q02870 Q05913 Q24216 Q24320 Q24325 Q27272 Q27294 Q27896 Q6IGE3 Q7JZF5 Q7KPG8 Q7KVP9 Q960E8 Q9V4D4 Q9VC49 Q9VCN9 Q9VEA5 Q9VFB5 Q9VHY5 Q9VIP1 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VT91 Q9VUR1 Q9XZT7	142767_at 152117_at 154538_at 38B.15 AT-1 BG:DS00941.10 BIP2 BTF1 Bip2 CCNH CD 7 CDK7 CG14037 CG6572 Can Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmTAF3 DmXPD Dmcdk7 Dmel\CG10415 Dmel\CG10756 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG1276 Dmel\CG2009 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG4448 Dmel\CG5041 Dmel\CG6577 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 E[[S]] MAT1 Mat1 Mo15 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SARFH SSL1 Ssl1 TAF TAF110 TAF13 TAF150 TAF155 TAF18 TAF250 TAF3 TAF30-ALPHA TAF30-BETA TAF40 TAF5 TAF55 TAF5L TAF80 TAFII155 TAFII40 TAF[[II]] TAF[[II]]155 TAF[[II]]18 TFB2 TFB4 TFB5 TFB5 (uORF) TFIID TFIIE TFIIE-L TFIIEalpha TFIIEbeta TFIIF30 TFIIbeta TTDA Taf1 Taf10b Taf11 Taf12 Taf13 Taf16 Taf18 Taf2 Taf3 Taf4 Taf5 Taf5L Taf6 Taf60 Taf7 Taf9 Tbp TfIIA-L TfIIA-S TfIIB TfIIE TfIIE-alpha TfIIE-beta TfIIEa TfIIEalpha TfIIEbeta TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB Trf WDA WFA WSB-1 WSB1 Wda XPD XPD/ERCC2 Xpd anon-84Ec anon-WO0118547.648 bip-II bip2 br17 can caz cdk-7 cdk7 dBIP2 dCdk7 dRpb7 dTAF5L dTAFII3 dTAF[[II]]155 dTAF[[II]]18 dTAF[[II]]80 dTFIIE-L dTFIIE-S dTFIIEL dTFIIES dWda dmTAF3 dmTAF5b e(y)1 hay i163 i31 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 ssl1 taf13 taf3 taf5L uORF wda xpd
RNA Polymerase II Transcription Initiation	Bip2 CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO07843p1 GEO11084p1 GH07456p GH11150p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit LD16387p RNA-binding protein cabeza RPB5 homolog TATA-box-binding protein TBP-related factor Transcription initiation factor IIA subunit 1 Transcription initiation factor IIA subunit 2 Transcription initiation factor IIB Transcription initiation factor IIE subunit beta Transcription initiation factor TFIID subunit 10b Transcription initiation factor TFIID subunit 11 Transcription initiation factor TFIID subunit 12 Transcription initiation factor TFIID subunit 1 Transcription initiation factor TFIID subunit 2 Transcription initiation factor TFIID subunit 4 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 6 Transcription initiation factor TFIID subunit 7 Transcription initiation factor TFIID subunit 9	B7Z018 O76513 O96880 O96881 O97183 P04052 P08266 P20227 P29052 P36958 P41900 P47825 P49846 P49847 P49905 P49906 P51123 P52654 P52656 Q02870 Q05913 Q24216 Q24320 Q24325 Q27272 Q27294 Q27896 Q6IGE3 Q7JZF5 Q7KPG8 Q7KVP9 Q960E8 Q9V4D4 Q9VC49 Q9VCN9 Q9VEA5 Q9VFB5 Q9VHY5 Q9VIP1 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VT91 Q9VUR1 Q9XZT7	142767_at 152117_at 154538_at 38B.15 AT-1 BG:DS00941.10 BIP2 BTF1 Bip2 CCNH CD 7 CDK7 CG14037 CG6572 Can Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmTAF3 DmXPD Dmcdk7 Dmel\CG10415 Dmel\CG10756 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG1276 Dmel\CG2009 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG4448 Dmel\CG5041 Dmel\CG6577 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 E[[S]] MAT1 Mat1 Mo15 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SARFH SSL1 Ssl1 TAF TAF110 TAF13 TAF150 TAF155 TAF18 TAF250 TAF3 TAF30-ALPHA TAF30-BETA TAF40 TAF5 TAF55 TAF5L TAF80 TAFII155 TAFII40 TAF[[II]] TAF[[II]]155 TAF[[II]]18 TFB2 TFB4 TFB5 TFB5 (uORF) TFIID TFIIE TFIIE-L TFIIEalpha TFIIEbeta TFIIF30 TFIIbeta TTDA Taf1 Taf10b Taf11 Taf12 Taf13 Taf16 Taf18 Taf2 Taf3 Taf4 Taf5 Taf5L Taf6 Taf60 Taf7 Taf9 Tbp TfIIA-L TfIIA-S TfIIB TfIIE TfIIE-alpha TfIIE-beta TfIIEa TfIIEalpha TfIIEbeta TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB Trf WDA WFA WSB-1 WSB1 Wda XPD XPD/ERCC2 Xpd anon-84Ec anon-WO0118547.648 bip-II bip2 br17 can caz cdk-7 cdk7 dBIP2 dCdk7 dRpb7 dTAF5L dTAFII3 dTAF[[II]]155 dTAF[[II]]18 dTAF[[II]]80 dTFIIE-L dTFIIE-S dTFIIEL dTFIIES dWda dmTAF3 dmTAF5b e(y)1 hay i163 i31 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 ssl1 taf13 taf3 taf5L uORF wda xpd
RNA Polymerase II Promoter Escape	Bip2 CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO07843p1 GEO11084p1 GH07456p GH11150p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit LD16387p RNA-binding protein cabeza RPB5 homolog TATA-box-binding protein TBP-related factor Transcription initiation factor IIA subunit 1 Transcription initiation factor IIA subunit 2 Transcription initiation factor IIB Transcription initiation factor IIE subunit beta Transcription initiation factor TFIID subunit 10b Transcription initiation factor TFIID subunit 11 Transcription initiation factor TFIID subunit 12 Transcription initiation factor TFIID subunit 1 Transcription initiation factor TFIID subunit 2 Transcription initiation factor TFIID subunit 4 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 5 Transcription initiation factor TFIID subunit 6 Transcription initiation factor TFIID subunit 7 Transcription initiation factor TFIID subunit 9	B7Z018 O76513 O96880 O96881 O97183 P04052 P08266 P20227 P29052 P36958 P41900 P47825 P49846 P49847 P49905 P49906 P51123 P52654 P52656 Q02870 Q05913 Q24216 Q24320 Q24325 Q27272 Q27294 Q27896 Q6IGE3 Q7JZF5 Q7KPG8 Q7KVP9 Q960E8 Q9V4D4 Q9VC49 Q9VCN9 Q9VEA5 Q9VFB5 Q9VHY5 Q9VIP1 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VT91 Q9VUR1 Q9XZT7	142767_at 152117_at 154538_at 38B.15 AT-1 BG:DS00941.10 BIP2 BTF1 Bip2 CCNH CD 7 CDK7 CG14037 CG6572 Can Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmTAF3 DmXPD Dmcdk7 Dmel\CG10415 Dmel\CG10756 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG1276 Dmel\CG2009 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG4448 Dmel\CG5041 Dmel\CG6577 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 E[[S]] MAT1 Mat1 Mo15 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SARFH SSL1 Ssl1 TAF TAF110 TAF13 TAF150 TAF155 TAF18 TAF250 TAF3 TAF30-ALPHA TAF30-BETA TAF40 TAF5 TAF55 TAF5L TAF80 TAFII155 TAFII40 TAF[[II]] TAF[[II]]155 TAF[[II]]18 TFB2 TFB4 TFB5 TFB5 (uORF) TFIID TFIIE TFIIE-L TFIIEalpha TFIIEbeta TFIIF30 TFIIbeta TTDA Taf1 Taf10b Taf11 Taf12 Taf13 Taf16 Taf18 Taf2 Taf3 Taf4 Taf5 Taf5L Taf6 Taf60 Taf7 Taf9 Tbp TfIIA-L TfIIA-S TfIIB TfIIE TfIIE-alpha TfIIE-beta TfIIEa TfIIEalpha TfIIEbeta TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB Trf WDA WFA WSB-1 WSB1 Wda XPD XPD/ERCC2 Xpd anon-84Ec anon-WO0118547.648 bip-II bip2 br17 can caz cdk-7 cdk7 dBIP2 dCdk7 dRpb7 dTAF5L dTAFII3 dTAF[[II]]155 dTAF[[II]]18 dTAF[[II]]80 dTFIIE-L dTFIIE-S dTFIIEL dTFIIES dWda dmTAF3 dmTAF5b e(y)1 hay i163 i31 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 ssl1 taf13 taf3 taf5L uORF wda xpd
Formation of TC-NER Pre-Incision Complex	CDK-activating kinase assembly factor MAT1 COP9 signalosome complex subunit 1b COP9 signalosome complex subunit 2 COP9 signalosome complex subunit 3 COP9 signalosome complex subunit 4 COP9 signalosome complex subunit 5 COP9 signalosome complex subunit 6 COP9 signalosome complex subunit 7 COP9 signalosome complex subunit 8 Cullin 4, isoform A Cyclin-H Cyclin-dependent kinase 7 DNA damage-binding protein 1 DNA repair protein complementing XP-A cells homolog DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO11084p1 GH07456p GH17761p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Polyubiquitin Pre-mRNA-processing factor 19 Pre-mRNA-splicing factor syf1 homolog RE31520p RING-box protein 1A RPB5 homolog Transcription elongation factor S-II Ubiquitin carboxyl-terminal hydrolase 7 Ubiquitin-like domain-containing protein Ubiquitin-ribosomal protein eS31 fusion protein Uncharacterized protein, isoform D Zinc finger protein 830	A1Z9G2 B7Z018 O76513 O97183 P04052 P08266 P0CG69 P15357 P20232 P28518 P36958 Q02870 Q24216 Q24320 Q5BI50 Q6IGE3 Q7JZF5 Q7KLW9 Q7KPG8 Q7KSN8 Q7KTH8 Q7KVP9 Q8SYG2 Q94899 Q960E8 Q9V345 Q9V4S8 Q9VBY5 Q9VC49 Q9VCY3 Q9VEA5 Q9VFB5 Q9VHV6 Q9VJE4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VUR1 Q9VVU5 Q9VYQ8 Q9W418 Q9W5E1 Q9XYZ5 Q9XZ58 R9PY16	142767_at 152117_at 154538_at AT-1 BG:DS00941.10 BcDNA.LD02793 BcDNA:LD02793 CCNH CD 7 CDK7 CG14037 CG14729 CG14730 CG18282 CG6572 CR11700 CR32744 CSN1b CSN2 CSN3 CSN4 CSN5 CSN6 CSN7 CSN8 CT36969 CUL4 Cdk7 Cul-4 Cul4 Cullin4 CycH D-rpII33 DDB1 DMcul-4 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmSII DmUb DmUbi-p5E DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11700 Dmel\CG11839 Dmel\CG11979 Dmel\CG31155 Dmel\CG31368 Dmel\CG32744 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG5041 Dmel\CG5519 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG8711 Dmel\CG9433 Dmel\CG9667 Dmp34 Dmp52 Dmp8 EC2-11 ERCC2 ERCC3 ESTS:143G11T ESTS:199A6T GPB Gbp ISY1 MAT1 Mat1 Mo15 PRP19 Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L Prp19 RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 Roc1a RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 RpS27A Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 Ssl1 TFB2 TFB4 TFB5 TFB5 (uORF) TTDA TfIIS Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB UB UB3-D UBI-F80 Ub Ubi Ubi-m Ubi-p5E Ubi-p5E5 Ubi-p63E Ubiq Ubiquitin Usp7 XPD XPD/ERCC2 Xpa Xpac Xpd Znf830 alien anon-WO0118547.648 anon-sts41 br17 cdk-7 cdk7 cul-4 cul-4-RA cul4 dCdk7 dCul4 dPrp19 dRpb7 fand fas hay l(2)07838 l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pic pol II polII poly-ub prp19 quo rpII33 rpb3 ssl1 uORF xpd
mRNA Capping	CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO11084p1 GH07456p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Nuclear cap-binding protein subunit 1 Nuclear cap-binding protein subunit 2 RPB5 homolog Transcription elongation factor SPT5 mRNA cap guanine-N7 methyltransferase mRNA-capping enzyme	B7Z018 O76513 O97183 P04052 P08266 P36958 P41900 Q02870 Q05913 Q24216 Q24320 Q6IGE3 Q7JZF5 Q7K4N3 Q7KPG8 Q7KVP9 Q960E8 Q9V3L6 Q9V460 Q9VC49 Q9VEA5 Q9VFB5 Q9VJE4 Q9VJQ4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VUR1 Q9VY44	142767_at 152117_at 154538_at AT-1 BG:DS00941.10 CCNH CD 7 CDK7 CG14037 CG6572 Cbp20 Cbp80 Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG1810 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG5041 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 MAT1 Mat1 Mo15 PIR Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 Rnmt RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 Spt5 Ssl1 TFB2 TFB4 TFB5 TFB5 (uORF) TFIIF30 TTDA TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB XPD XPD/ERCC2 Xpd anon-WO0118547.648 br17 br9 cdk-7 cdk7 dCdk7 dRpb7 hay l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)br9 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mRNA-cap mRNA-capping-enzyme mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 ssl1 uORF xpd
RNA Pol II CTD phosphorylation and interaction with CE	CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase II subunit RPB11 DNA-directed RNA polymerase II subunit RPB1 DNA-directed RNA polymerase II subunit RPB2 DNA-directed RNA polymerase II subunit RPB7 DNA-directed RNA polymerase II subunit RPB9 DNA-directed RNA polymerase II subunit Rpb4 DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 GEO11084p1 GH07456p General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIF subunit 1 General transcription factor IIF subunit 2 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit RPB5 homolog Transcription elongation factor SPT5 mRNA cap guanine-N7 methyltransferase mRNA-capping enzyme	B7Z018 O76513 O97183 P04052 P08266 P36958 P41900 Q02870 Q05913 Q24216 Q24320 Q6IGE3 Q7JZF5 Q7KPG8 Q7KVP9 Q960E8 Q9V460 Q9VC49 Q9VEA5 Q9VFB5 Q9VJE4 Q9VJQ4 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VUR1 Q9VY44	142767_at 152117_at 154538_at AT-1 BG:DS00941.10 CCNH CD 7 CDK7 CG14037 CG6572 Cdk7 CycH D-rpII33 DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG1810 Dmel\CG31155 Dmel\CG3319 Dmel\CG34186 Dmel\CG42373 Dmel\CG5041 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG7885 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 MAT1 Mat1 Mo15 PIR Pol II Pol II RPII33 PolII PolIIo Polr2A Polr2B Polr2C Polr2D Polr2E Polr2F Polr2G Polr2H Polr2I Polr2J Polr2K Polr2L RNA Pol II RNA pol II RNA polII RNAP RP140 RPB1 RPB12 RPB2 RPB3 RPB5 RPB6 RPB7 RPB8 Rbp3 Rnmt RpABC14 RpII140 RpII15 RpII18 RpII215 RpII33 Rpb10 Rpb11 Rpb12 Rpb3 Rpb4 Rpb5 Rpb7 Rpb8 Rpll33 SSL1 Spt5 Ssl1 TFB2 TFB4 TFB5 TFB5 (uORF) TFIIF30 TTDA TfIIFalpha TfIIFbeta Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB XPD XPD/ERCC2 Xpd anon-WO0118547.648 br17 br9 cdk-7 cdk7 dCdk7 dRpb7 hay l(2)34Dg l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(2)br17 l(2)br9 l(2)k05605 l(3)E35 l34Dg lincRNA.843 mRNA-cap mRNA-capping-enzyme mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 pol II polII rpII33 rpb3 ssl1 uORF xpd
RNA Polymerase I Promoter Escape	CDK-activating kinase assembly factor MAT1 Cyclin-H Cyclin-dependent kinase 7 DNA-directed RNA polymerase I subunit RPA1 DNA-directed RNA polymerase I subunit RPA2 DNA-directed RNA polymerase subunit DNA-directed RNA polymerases I, II, and III subunit RPABC2 DNA-directed RNA polymerases I, II, and III subunit RPABC3 DNA-directed RNA polymerases I, II, and III subunit RPABC5 FI06908p GEO11084p1 General transcription and DNA repair factor IIH helicase subunit XPD General transcription and DNA repair factor IIH helicase/translocase subunit XPB General transcription and DNA repair factor IIH subunit TFB5 General transcription factor IIH subunit 1 General transcription factor IIH subunit 3 General transcription factor IIH subunit 4 General transcription factor IIH subunit Histone H2A.v Histone H2A Histone H2A Histone H2B Histone H3.3A Histone H3.3B Histone H3 Histone H4 LD10456p LD14127p LP03982p RNA polymerase I subunit F RPB5 homolog TATA box-binding protein-associated factor RNA polymerase I subunit B TATA-box-binding protein TBP-related factor	B7Z018 C0HL66 C0HL67 O76513 P02283 P02299 P08985 P20028 P20227 P84040 P84051 P91875 Q02870 Q24216 Q24320 Q27896 Q4AB57 Q6IGE3 Q7JZF5 Q7KPG8 Q7KVP9 Q960E8 Q9V9M6 Q9VC49 Q9VD81 Q9VE94 Q9VH20 Q9VM72 Q9VMX3 Q9VNP8 Q9VNZ3 Q9VPX4 Q9VUR1 Q9W396	142767_at 154538_at AC40 AT-1 BEST:CK01205 BEST:GH23590 BTF1 CCNH CD 7 CDK7 CG14037 CG16938 CG5951 CK01205 Cdk7 CycH DhR3 DhXPD DmCDK7 DmCdk7 DmMO15 DmMo15 DmRPB5 DmXPD Dmcdk7 Dmel\CG11115 Dmel\CG11246 Dmel\CG11979 Dmel\CG13418 Dmel\CG13773 Dmel\CG18600 Dmel\CG3278 Dmel\CG3319 Dmel\CG33853 Dmel\CG33856 Dmel\CG33859 Dmel\CG34186 Dmel\CG3756 Dmel\CG42373 Dmel\CG5041 Dmel\CG7041 Dmel\CG7405 Dmel\CG7614 Dmel\CG7764 Dmel\CG9433 Dmp34 Dmp52 Dmp8 ERCC2 ERCC3 H2AvD H2a H4 H4r HP1 HP1B HP1b HP1b-RA His2A His2A:CG31618 His2A:CG33808 His2A:CG33814 His2A:CG33817 His2A:CG33820 His2A:CG33823 His2A:CG33826 His2A:CG33829 His2A:CG33832 His2A:CG33835 His2A:CG33838 His2A:CG33841 His2A:CG33844 His2A:CG33847 His2A:CG33850 His2A:CG33853 His2A:CG33856 His2A:CG33859 His2A:CG33862 His2A:CG33865 His2Av His2AvD His2B His2B:CG17949 His2B:CG33868 His2B:CG33870 His2B:CG33872 His2B:CG33874 His2B:CG33876 His2B:CG33878 His2B:CG33880 His2B:CG33882 His2B:CG33884 His2B:CG33886 His2B:CG33888 His2B:CG33890 His2B:CG33892 His2B:CG33894 His2B:CG33896 His2B:CG33898 His2B:CG33900 His2B:CG33902 His2B:CG33904 His2B:CG33906 His2B:CG33908 His2B:CG33910 His3 His3.3A His3.3B His3:CG31613 His3:CG33803 His3:CG33806 His3:CG33809 His3:CG33812 His3:CG33815 His3:CG33818 His3:CG33821 His3:CG33824 His3:CG33827 His3:CG33830 His3:CG33833 His3:CG33836 His3:CG33839 His3:CG33842 His3:CG33845 His3:CG33848 His3:CG33851 His3:CG33854 His3:CG33857 His3:CG33860 His3:CG33863 His3:CG33866 His4 His4:CG31611 His4:CG33869 His4:CG33871 His4:CG33873 His4:CG33875 His4:CG33877 His4:CG33879 His4:CG33881 His4:CG33883 His4:CG33885 His4:CG33887 His4:CG33889 His4:CG33891 His4:CG33893 His4:CG33895 His4:CG33897 His4:CG33899 His4:CG33901 His4:CG33903 His4:CG33905 His4:CG33907 His4:CG33909 His4r Hp1b MAT1 Mat1 Mo15 Polr1B Polr1C Polr1E Polr1F Polr1H Polr2E Polr2F Polr2H Polr2K Polr2L RP135 RPA1 RPA43 RPB12 RPB5 RPB6 RPB8 RPC40 RpABC14 RpI1 RpI12 RpI12-RA RpI135 RpII18 Rpb10 Rpb12 Rpb5 Rpb8 SSL1 Ssl1 TAF1B TFB2 TFB4 TFB5 TFB5 (uORF) TFIID TIF-1A TIF-IA TIf-IA TTDA Tbp Tfb1 Tfb2 Tfb4 Tfb5 Tfb5-RB Tif-1A Tif-1a Tif-IA TifIA Trf XPD XPD/ERCC2 Xpd anon-WO0118547.648 cdk-7 cdk7 dA43 dCdk7 dTIF-IA hay hp1b l(2)SH1279 l(2)SH2 1279 l(2)SH2 2137 l(2)SH2137 l(3)E35 lincRNA.843 mrn ms(3)nc16 nc16 p34 p40[MO15] p44 p52 p8 ssl1 tif1a uORF xpd
Cyclin A:Cdk2-associated events at S phase entry	CDK-activating kinase assembly factor MAT1 Cdc25-like protein phosphatase twine Cyclin-H Cyclin-dependent kinase 2 Cyclin-dependent kinase 7 Dacapo Fizzy-related, isoform A G2/mitotic-specific cyclin-A M-phase inducer phosphatase RAC serine/threonine-protein kinase Uncharacterized protein, isoform C Wee1-like protein kinase	A0A0B4KF19 O76513 P14785 P20483 P23573 P54350 Q03019 Q24216 Q7JNL9 Q7KPG8 Q8INB9 Q9W4H9	142767_at APC/C[Fzr/Cdh1] AT-1 Akt Akt1 BcDNA:GH06193 CCNH CD 7 CDH1 CDI4 CDK7 CDKN2B CIB1 Cdh1 Cdh1/Fzr Cdh1FZR Cdh1[Fzr] Cdh[Fzr] Cdi4 Cdk2 Cdk7 CycA CycH DAP Dac Dacapo Dap Decapo DmCDK7 DmCdk7 DmMO15 DmMo15 Dmcdk7 Dmel\CG1772 Dmel\CG3000 Dmel\CG3319 Dmel\CG6191 Dmel\CG7405 Dmel\CG7614 Dromel_CG6191_FBtr0087678_mORF E(Sev-CycE)2B Fxr Fzr Fzr/rap Hec/Cdh[Fzr] MAT1 Mat1 Mo15 P15 Rap/Fzr Wee1 anon-WO03040301.193 cdc25 cdc2c cdh1 cdi4 cdk-7 cdk7 dCdk7 dFZR dap dap-RA fzr fzr/Cdh1 fzr/cdh1 l(1)G0326 l(1)G0418 l(2)04454 p21 p21[dacapo] p27 p27[Dap] p27cip/kip p40[MO15] rap rap/Fzr rap/fizzy-related rap/fzr redax stg twe wee wex
Cyclin E associated events during G1/S transition	CDK-activating kinase assembly factor MAT1 Cdc25-like protein phosphatase twine Cyclin-H Cyclin-dependent kinase 2 Cyclin-dependent kinase 7 Dacapo G1/S-specific cyclin-E M-phase inducer phosphatase RAC serine/threonine-protein kinase Uncharacterized protein, isoform C Wee1-like protein kinase	A0A0B4KF19 O76513 P20483 P23573 P54350 P54733 Q03019 Q24216 Q7JNL9 Q7KPG8 Q8INB9	142767_at AT-1 Akt Akt1 BcDNA:GH06193 CCNH CD 7 CDI4 CDK7 CDKN2B CIB1 Cdi4 Cdk2 Cdk7 CycE CycH DAP Dac Dacapo Dap Decapo DmCDK7 DmCdk7 DmMO15 DmMo15 Dmcdk7 Dmel\CG1772 Dmel\CG3319 Dmel\CG6191 Dmel\CG7405 Dmel\CG7614 Dromel_CG6191_FBtr0087678_mORF E(Sev-CycE)2B MAT1 Mat1 Mo15 P15 Wee1 cdc25 cdc2c cdi4 cdk-7 cdk7 dCdk7 dap dap-RA l(2)04454 p21 p21[dacapo] p27 p27[Dap] p27cip/kip p40[MO15] stg twe wee
Synaptic adhesion-like molecules	Disks large 1 tumor suppressor protein Eye-enriched kainate receptor, isoform B FI01405p Flotillin-1 Flotillin-2 Glutamate [NMDA] receptor subunit 1 Glutamate receptor 1 Glutamate receptor IB, isoform B IP13856p Ionotropic receptor 21a Ionotropic receptor 25a Ionotropic receptor 8a Ionotropic receptor 93a Kekkon 5, isoform A NMDA receptor 2, isoform C Reticulon-like protein Tyrosine-protein phosphatase Lar protein-tyrosine-phosphatase	A1ZAB3 E1JHT6 E9NA96 M9PHV5 O61491 O61492 P16621 P31007 Q03445 Q0KIF2 Q24418 Q9V4A0 Q9VDH6 Q9VPI2 Q9VW78 Q9VWI6 Q9W365 Q9W581	142893_at 76b 79G8T CG11155-RA CG12122 CG12666 CG14793 CG14794 CG18623 CG42509 CG4481 CG8895 CT10486 CT18044 CT22733 CT30863 CT34603 CT36399 CT7438 DGluR-IB DPTP52F Dm_3L:43677 DmelCG11155 DmelCG9935 DmelGlu-R1B DmelIR76b DmelIR8a DmelNmdar2 Dmel\CG11155 Dmel\CG12199 Dmel\CG18243 Dmel\CG32704 Dmel\CG33113 Dmel\CG33513 Dmel\CG43743 Dmel\CG7385 Dmel\CG9935 DrNR2 EG:80H7.7 ESTS:79G8T Ekar FLODM-1 FLODm-2 Flo Flo-1 Flo-2 Flo1 Flo2 G9 Glu-R1B Glu-RI Glu-RIB GluR1B GluRIA GluRIB GluRIb IR76B IR76b IR8a Ir21a Ir25a Ir76b Ir8a Ir93a Kek5 Lar NMDA-R2 NMDAR NMDAR2 NR1 NR2 Nmdar1 Nmdar2 PTP52F Ptp52F Ptp52F-RB RTNL1 Retl1 Rtn1 Rtnl-1 Rtnl1 anon-sts34 dNR2 dglur-IB dlg1 dnmdar-II dsNR2 ekar ir76b kek-5 kek5 l(1)dlg1 nmr nr2 ptp52F rtnl1

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