Table 1. Mapping of breakpoints of deficiencies in the 24C3-25A cytogenetic region.

Gene	method	M24	h28	h25	h19	h24	ED 252	ED 250	ED 251	Exel 6010	Exel 9062	Exel 3006
CG3714	comp	+++	+++	+++	+++	+++	+	+	+	+	+	+
ft	comp	+++	+++	+++	+++	+++	+	+	+	+	+	+
CG3702		?	?	+	+	+	+	+	+	+	+	+
RpL40		?	?	+	+	+	+	+	+	+	+	+
CG15425		?	?	+	+	+	+	+	+	+	+	+
CG3675		?	?	+	+	+	+	+	+	+	+	+
tutl	comp	−	−	+++	+++	+++	+	+	+	+	+	+
CG16857				+	+	+	+	+	+	+	+	+
Atet	PCR		−	+++	+++	+	+	+	+	+	+	+
CG15429	PCR		−	−	+++	+	+	+	+	+	+	+
CG15430					+	+	+	+	+	+	+	+
Traf4	PCR		−	−	+++	+	+	+	+	+	+	+
CG17612					+	+	+	+	+	+	+	+
CG3338					+	+	+	+	+	+	+	+
CG18013	comp	−	−	−	+++	+++	+	+	+	+	+	+
Tps1	PCR		−	−	+++	+++	+	+	+	+	+	+
Tps1	comp	−	−	−	−	+++	+	+	+	+	+	+
CG3652	PCR	−	−	−	−	+++	+	+	+	+	+	+
l(2)k05819						+	+	+	+	+	+	+
CG3058						+	+	+	+	+	+	+
CG15431						+	+	+	+	+	+	+
CG12677	PCR		−	−	−	+++	+	+	+	+	+	+
CG15432						?	+	+	+	+	+	+
morgue						?	+	+	+	+	+	+
CG15433						?	+	+	+	+	+	+
CG15438						?	+	+	+	+	+	+
CG15439						?	+	+	+	+	+	+
	5-HA-1707					?		+	+	+	+	+
CG15440						?		+	+	+	+	+
CG15434						?		+	+	+	+	+
Gs1l						?		+	+	+	+	+
RpL27A	comp	−	−	−	−	−		+	+	+	+	+
CG15435								+	+	+	+	+
CG15443								+	+	+	+	+
CG15436	PCR	−	−	−	−	−		+	+	+	+	+
CG17840			?			?		+	+	+	+	+
ine			?			?		+	+	+	+	+
	CB-5668-3		?			?				+	+	+
dp	comp	−	−	−	−	−				+	+	+
dp	PCR	−	+++	−	−	+++				+	+	+
CG15636			+			+				+	+	+
CG11934			+			+				+	+	+
CG11933			+			+				+	+	+
CG11932			+			+				+	+	+
CG15635			+			+				+	+	+
CG11931			+			+				+	+	+
CG3355			+			+				+	+	+
CG11930			+			+				+	+	+
CG11929	PCR	−	+++	−	−	+++				+	+	+
Bsg25A			+			+				+	+	+
CG15634	PCR	−	+++	−	−	+++				+	+	+
CG3251			+			+				+	+	+
Taf30a-2			+			+				+	+	+
CG15633			+			+				+	+	+
CG11928			+			+				+	+	+
CG15631	PCR	−	−	−	−	−				+	+	+
CG15630		?	+		?	+				+	+	+
CG3294		?	+		?	+				+	+	+
CG3244		?	+		?	+				+	+	+
CG15629		?	+		?	+				+	+	+
CG3225	PCR	+++	+++	−	+++	+++				+	+	+
	5-HA-1531	+	+	?	+	+					+	+
CG15628		+	+	?	+	+		+			+	+
CG2976		+	+	?	+	+		+			+	+
CG15627		+	+	?	+	+		+			+	+
CG15626		+	+	?	+	+		+			+	+
CG12194		+	+	?	+	+		+			+
CG2950		+	+	?	+	+		+			+
CG11927	comp	+	+	?	+	+		+		−	−	−
mRpS2	comp	+++	+++	+++	+++	+++		+		−	−	−
CG11926		+	+	+	+	+		+
CG31660		+	+	+	+	+		+
Cf2		+	+	+	+	+		+				+
CG3008		+	+	+	+	+		+				+
CG15625		+	+	+	+	+		+		+	+	+
	5-HA-1621 CB-0110-3	+	+	+	+	+		+		+	+	+
CG3036		+	+	+	+	+	+	+	+	+	+	+

The left column lists all predicted and known genes in the region. The second column indicates which genes were tested and by what method. It also indicates the elements used for generating new deficiencies. The method for testing the classical deficiencies was either single embryo PCR (PCR) or complementation (comp). The deficiencies are abbreviated; please refer to Table S1 for the full names. A ‘+++’ sign indicates that the gene is not uncovered, a ‘—’ that it is uncovered. Areas marked by ‘+’ are the extrapolations from the experimental data for regions that are not deleted, blank fields to regions that are deleted. For the Drosdel and Exelixis deletions these regions are deduced from the P-element insertions that were used to generate the deficiencies. Regions of uncertainty are denoted by ‘?’. Genes highlighted in bold italic are those that are listed at the top of Figure 2 for orientation.

Note that in Df(2L)dph28 and Df(2L)dph24 we obtain no PCR product for CG15631, although the primers work well on wild type flies (see Figure S1).

We do not understand this result, but assume that either the parent stock from which both deficiencies were derived had a mutation that affects this gene, or in each case a small lesion was generated during the rearrangement that created the deficiencies.