Table 3.

Genes and transcripts affected by deletions predicted from aberrantly mapping sequence pairs

Gene	Transcript	Strain	Exons
1700001C19Rik	ENSMUST00000073143	CAST/Ei	1
Alk	ENSMUST00000086639	A/J	19
Capn13	ENSMUST00000095208	CAST/Ei	7
EN	ENSMUST00000052440	CAST/Ei	1, 2
	ENSMUST00000077420	CAST/Ei	1
	ENSMUST00000079363	CAST/Ei	1
	ENSMUST00000086423	CAST/Ei	1
ENSMUSG00000060087	ENSMUST00000077584	A/J	1, 2
Galnt14	ENSMUST00000024858	CAST/Ei	15
Gfer	ENSMUST00000046839	A/J	3
	ENSMUST00000046839	CAST/Ei	3
mmu-mir-692-1	ENSMUST00000102263	A/J	1
	ENSMUST00000102263	CAST/Ei	1
Olfr55	ENSMUST00000112168	CAST/Ei	1
Prss28	ENSMUST00000015267	A/J	1-7
Rpl35a	ENSMUST00000087940	A/J	1
	ENSMUST00000087940	CAST/Ei	1
Tbc1d24	ENSMUST00000040474	A/J	9
	ENSMUST00000040474	CAST/Ei	9
	ENSMUST00000097376	CAST/Ei	10
U6	ENSMUST00000102026	A/J	1
V1rf3	ENSMUST00000077301	CAST/Ei	1
Wiz	ENSMUST00000087699	A/J	4