TABLE 2.

Primer pairs for all diagnostic PCR and sequencing analysis

Locus/marker	Primer pair specifics	Forward primer	Reverse primer
EGFP		ctggtcgagctggacggcgacg	cacgaactccagcaggaccatg
EGFP diagnostic control	SOD1	gagcagcggtacgcccgtga	gcaccagcgttgcccgttga
Deletion mapping control	3′ essential end of crumbs	ggcaactgcacggatcttat	gggcggtacgtatgtcatct
CG41265 (l(2)41Ab)	Exon 1	tttcatttctggaggaattagcc	ggaaagaataaacgccgttgg
	Exon 2–3	ggtcctcaaaatgactattgaacg	ggacatgcacagatatgaaaacg
	Exon 4	ccagcctctatcttggatagttcc	gctaatcgctttcataccagacg
	Exon 5	tgaaattttgctttctcatttcg	aaaaactatgttatgcccaaaaagc
	Exon 6–7	aagagtgatcagcaatcgtaaacc	tccagaattttccgttattttgg
CG41592	3′ end	tcagtggcagaggaatcaga	tcatcattggtgcagttgct
CG40270	5′ end	attgccgttacgaaaacacc	tgccgctctccaaactaact
CG40733	5′ end	ctattctcatgctggggtttc	tcgcatcagaaagtgtttgg
CG41278	5′ end	caagctaacgcagttccaca	cggtgcactcatgatacctg
CG42595 (uex)	Exon 1	tgcatgttagctctttattacaatcg	ggtgactgtatggatgtttctcagg
	Exon 2	tggttattcatcttgtttagactcacg	aaatataaggcaataggagttctacacc
	Exons 3–4	tgatattggcaagaagaataaaatcc	caaattgacttattttcccgttagc
	Exons 5–6	gaattttgctgtttctgtgtgtcg	ttttgacccataccctgtgaagg
	Exons 7–9	atttctagttcgcgctttcactagc	atttcgcgtaagcattcacactagc
	Exon 10	gcattcgtattttgtgtttttcaacc	ggaatataattaatatgggaaaacctatgg
	Exons 11–13	taatgctctcatcttcaagctttgc	gcataagtgcgaatttaatagtgc
Haspin	Exons 1–2	aagcaaataaataaacaacgtcacc	ccattacacagatacagatccaagc
	Exon 5	tgcacacgaatttattgaaattaagc	gtaatcggaattcaaagaactcagc
CG41323	Exons 3–4	atcttccaattcttctggtctgtcc	ataaccggaatctataaccttgtcg
CG40085		atcttccaattcttctggtctgtcc	ataaccggaatctataaccttgtcg
CG41363	5′ end	cctttgtaacatgccgtgtg	tccaacagcccacaacagta
CG17683	5′ end	gaggtttctgcggtttgtga	gcagcatcctccacacctat
	Exons 1–3	attacgccctcacaggtttg	tgccttgctgaaaaagtcct
CG17683	Exons 3–4	ctaccatgtgaccgtgatgc	ttaaggagttttcgggttcg
	3′ end	cggaggagcacaaatacgtc	aacggccatgcattctacat
CG40133	5′ end	cacagggaagagaatgacca	ccgacttttcgtcaaactgc
	3′ end	ccataacagcagtggtggaa	cacaaggtcgtgttggtgtc
CG40127		actaaaacggcccttgttcc	cactccgccccttaatacaa
CG40131		tcgttcgttcagtttggtga	gcatttgtgttacggattgg
CG41449		tggagtcattggtcagcaaa	gtgggcttaatctccactcg
CG17665	5′ end	cggttgcattttattgtggtc	acgaattcccgtaacaacca
	Exon 2	aattcgagcgttcgtttgtc	ccggaacgcttaactactgc
	Exon 3	tcccttgaaaagtgcaaatgt	agaaatccaacagcgtgctac
	Exons 3–5	gatgggcaatcataggttgg	catcgtcgtcatccgtattg
	Exons 5–6	ttttagcgacgaaactgctg	tcgaaacaaaccgtacaaagg
	Exons 6–7	gggagactttgcctcaacaa	gacttccggcttccagttct
	Exons 6–9	cggctctcgactatttcactg	gaacgtaaaggccagttcca
	Exons 8–11	tgcttccctgcttacatcaa	tccttctcttagccgtttgc
	3′ end	gcagcggaagaagataccac	aaccatcttgcgatcctgtc
Gprk1	5′ end	aatacctcgggtcgggtaaa	gccatccacggtcacacta
	3′ end	ataaaagtctgcgggccaat	ttctgaggtatatggtaaagcgttaat
CG17883	3′ end	cggaggagcacaaatacgtc	aacggccatgcattctacat
Nipped-B	5′ end	gtttgtttggttgtagcgtaatg	atgttggtccggagagtctg
	3′ end	gaggagaaattggaccttgttg	gttgcttagcttcgacttcttc
CG17706		agcacttctcattgcacatcc	cacttccactgtttccagttc

All primers were designed to have a melting temperature of ∼60°–64°.