Discovery of novel alternatively spliced C. elegans transcripts by computational analysis of SAGE data

BMC Genomics

Table 1 Expression data for exon skipping candidates

Gene/Tag	Junction	Exon length	F-1	F-6	DF1	DF-6	DF10	N2-1
C33G3.4
TGAAAGAAAA	5..7	255	3	0	0	1	1	3
C52E4.6a
ATAAAAATAG	6..8	723	0	0	0	0	1	0
F27D4.4
AGAATGAAAA	4..6	102	3	0	0	0	1	0
T01G5.1
TATTCATTCT	4..6	219	2	3	2	0	1	5
T05B4.1
GGTTTATAAA	3..5	66	0	2	2	0	0	1
T14G10.1
CCAGAAATGG	4..6	264	3	13	6	1	12	22
W04G5.9
GAACTGAATG	10..12	123	3	4	0	1	2	1
Y49F6B.8
CTAAAATGAT	1..3	399	0	1	0	0	0	0

SAGE data for eight tags selected for validation of predicted exon skipping by RT-PCR. Junction column shows the exons that form the predicted splice junction, and the other columns show the normalized tag counts in the SAGE libraries made from the RNA preparations used in validation experiments: F-1, 6: fer-15 at days 1 and 6 of adulthood; DF-1, 6, 10: daf-2; fer-15 at days 1, 6 and 10 of adulthood; N2-1: N2 at day 1 of adulthood. Tags in all libraries were normalized to 100,000 total tags.

ISSN: 1471-2164