Identification of novel regulatory factor X (RFX) target genes by comparative genomics in Drosophila species

Laurençon, Anne; Dubruille, Raphaëlle; Efimenko, Evgeni; Grenier, Guillaume; Bissett, Ryan; Cortier, Elisabeth; Rolland, Vivien; Swoboda, Peter; Durand, Bénédicte

doi:10.1186/gb-2007-8-9-r195

Table 3 Eighty-three genes selected for a conserved X-box between D. melanogaster and D. pseudoobscura

From: Identification of novel regulatory factor X (RFX) target genes by comparative genomics in Drosophila species

					Source [reference]
CG# release 3.2.1	Rfx target fold reduction	Flybase gene name	Known protein function	Annotated predictive function	[12]	[11]	[14]	[13]	[10]	[15]	[36]	[37]	[45]	[44]	[59]	DCBB	Ciliome database	Ciliary proteome database	Human homologs
1126	95	CG1126	BBS5				ν	ν			ν	ν				ν	ν	ν	NP_689597
2321	-	CG2321	-																NP_060350.1
2691	-	CG2691	-																NP_055994.1
3259	iv	CG3259	MIP_T3			ν	ν	ν		ν		ν			ν	ν	ν	ν	NP_056465
3344	-	CG3344		Serine carboxypeptidase															NP_067639.1
3603	-	CG3603		Rhodopsin-like receptor													ν		NP_055049.1
3723	3	Dhc93AB	DNAH9	ATPase activity, coupled	ν	ν	ν		ν							ν	ν	ν	NP_001363
3769	63	CG3769	xbx1/D2LIC			ν	ν				ν					ν	ν	ν	NP_057092
4135	-	beat-IIb		IgSF protein, axon guidance															1 to many
4314	-	st	scarlet	ATPase															1 to many
4536	6	iav	TRPV4														ν		NP_067638.3
4857	-	CG4857	-																-
4984	-	CG4984	-																NP_114102.2
5148	-	CG5148	-																-
5155	Neg	CG5155	-	Binding					ν							ν	ν	ν	NP_060546
5599	-	CG5599		Acetyltransferase													ν	ν	NP_001909
6054	Neg	Su(fu)	Su(fu)	Kinase inhibitor															NP_057253.2
6121	Neg	Tip60		Histone acetyltransferase													ν		NP_874369.1
6129	6/iv	CG6129	rootletin						ν					ν		ν		ν	NP_055490
6405	-	CG6405	-																XP_936274.2
6665	-	CG6665	-																NP_056264.1
6696	-	CG6696		Meprin A/proteolysis														ν	NP_005916
7104	-	Spz3																	-
7669	-	CG7669							ν							ν			NP_002815.3
7754	-	iotaTry		Trypsin															1 to many
8344	-	RpIII128		RNA polIIIb													ν		NP_060552.3
8362	Neg	nmdynD7		Nucleoside diphosphate kinase	ν	ν	ν			ν			ν	ν	ν	ν	ν	ν	NP_037462
8853	23	CG8853	IFT55/Hippi			ν	ν	ν	ν	ν	ν	ν				ν	ν	ν	NP_060480
8971	-	fh	frataxin like																NP_000135.2
9035	-	Tapdelta		Signal sequence binding															NP_006271.1
9227	iv	tectonic	Tectonic				ν	ν			ν	ν				ν	ν	ν	NP_085055
9298	-	CG9298		Synbindin															NP_057230.1
9363	-	CG9363		Glutathione transferase zeta															NP_665877.1
9467	-	CG9467		V-gated K channel complex															NP_057205.2
9689	-	CG9689	-																-
9764	-	yrt	yurt	Cytoskeletal protein binding															NP_060894.2
10035	-	CG10035	-																-
10068	-	CG10068	-																NP_714913.1
10143	-	Adgf-E		Adenosine deaminase															NP_803124.1
10601	-	mirr		Protein binding														ν	NP_077311
10859	-	CG10859	DIC	Motor activity															NP_075462
11015	-	CG11015	COX5B	Cytochrome-c oxidase													ν		NP_001853
11164	-	CG11164	-																NP_078846.1
11356	-	CG11356	ARL13B	GTP binding															NP_878899
11426	-	CG11426		Lipid metabolism															1 to many
11438	-	CG11438		G protein coupled pathway															NP_795714.1
11529	-	CG11529		Chymotrypsin activity															NP_005037.1
11983	-	CG11983	-																-
12020	-	CG12020	-	Heat shock protein binding		ν				ν						ν			NP_705842.2
13125	5	CG13125		LRR	ν	ν	ν								ν	ν	ν	ν	NP_112584
13202	-	CG13202	-																-
13216	-	CG13216	-																-
13251	-	CG13251	-																NP_001012524.1
13271	-	Ugt36Bb		Glucuronosyltransferase															1 to many
13415	2	Cby	Chibby																NP_056188.1
13432	Neg	l(2)05510	-																-
13809	172/iv	osm-1	IFT172/wim			ν	ν	ν	ν		ν	ν				ν	ν	ν	NP_056477
14079	-	CG14079	-																NP_061946.1
14127	Neg	CG14127	-						ν							ν	ν	ν	NP_659482
14313	-	CG14313	-																-
14430	-	CG14430	-																-
14661	-	CG14661	-																-
14791	Neg	Rab27		GTP binding				ν								ν	ν	ν	NP_004571
15148	124	btv	DNCH2	ATPase activity, coupled		ν	ν		ν							ν	ν	ν	NP_001073932
15161	207	CG15161	IFT46/dyf-6			ν	ν	ν	ν	ν						ν	ν	ν	NP_064538
15564	-	CG15564	-																-
15878	-	CG15878	-																-
17150	2	CG17150	DNAH3	Motor activity		ν	ν									ν			NP_060009
17259	-	CG17259		Seryl trna synthetase													ν		NP_006504.2
17284	-	Obp93a		Odorant binding															-
17785	Neg	Golgin84																	NP_005104.2
18432	-	CG18432																	NP_001073991.1
18584	-	CG18584	UNC84																NP_056189.1
18869	-	CG18869		UDP glycosyl transferase															-
30021	-	skf		Guanylate kinase															NP_775767.2
30441	2.8	CG30441	IFT20			ν		ν		ν	ν					ν	ν		NP_777547.1
31036	4/iv	CG31036	-																-
31127	-	Wsck		Protein-tyrosine kinase															NP_005223.3
31257	-	CG31257	-																-
31321	-	CG31321	-																NP_542400.2
31640	-	CG31640	-	Protein-tyrosine kinase															NP_001014796.1
31824	-	CG31824	-	Trypsin															-
33038	Neg	CG8433	exostosin2																NP_056499.2

Listing established with the restricted GYTRYYN{1-3}RRHRAC X-box consensus. Neg, invariant expression in dRfx deficient background compared to wt; iv, in vivo confirmation of reporter construct down regulation in dRfx deficient background compared to wild type. The presence of a gene in other published studies is noted as ν.

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