Table 3.

Sense and antisense transcripts at disease loci with normal length repeats^a

Disease	Repeat	Gene	Cell Lineb
			PBMC		HCT116		Jurkat		MaPaC		MRC5
			Sc	ASd	S	AS	S	AS	S	AS	S	AS
DM1	CTG	DMPK	34	0	35	2	72	13	35	1	307	11
DRPLA	CAG	ATN1	31	5	67	2	113	19	75	1	455	3
FRAXA	CGG	FMR1	69	0	16	1	98	0	9	0	35	0
FRAXE	CCG	AFF2	10	8	2	4	1242	9	2	4	9	7
FRDA	GAA	FXN	16	0	16	1	25	0	13	0	32	2
HD	CAG	HTT	569	6	223	10	879	15	211	2	672	10
HDL2	CTG	JPH3	5	41	2	15	16	92	0	9	8	31
SBMA	CAG	AR	7	1	3	0	1	0	1	0	91	2
SCA1	CAG	ATXN1	758	15	107	8	212	12	6	2	1458	22
SCA2	CAG	ATXN2	97	5	60	1	235	1	42	1	325	5
SCA3	CAG	ATXN3	36	2	24	4	77	6	3	2	37	6
SCA6	CAG	CACNA1A	9	11	4	8	11	14	11	2	207	13
SCA7	CAG	ATXN7	380	9	107	2	473	11	26	3	327	9
SCA8	CTG	C10orf2	11	0	41	2	19	1	16	0	8	1
SCA12	CAG	PPP2R2B	232	13	8	4	11	9	2	2	11	7
SCA17	CAG	TBP	14	1	5	0	30	1	4	0	13	0

^aData compiled from⁵⁹. In these experiments, RNA was isolated from 6 different cell lines and subjected to deamination to differentiate between sense and antisense strands. cDNAs generated from the deaminated transcripts were deep sequenced⁵⁹. The numbers reported in the table refer to the number of different sequencing reads that mapped to a given transcript. We highlighted the cases where the number of antisense sequences found for a gene amounts to at least 10% of the number of sense sequencing reads for the same gene. Data for the Jurkat and MRC5 cell lines have been summed from duplicate experiments. Note that in the case of HDL2 antisense transcripts were found to be more abundant than the sense transcript in all cell lines tested.

^bPBMCs are primary peripheral blood mononuclear cells; the HCT116 is a colorectal cancer cell line; Jurkat 1 is T cell leukemia cell line; MaPac is a pancreatic cancer line; MRC51 is a lung fibroblast cell line.

^cS is the number of sense sequences that map to a single gene.

^dAS is the number of antisense sequences that map to a single gene.