Table 6

Analysis of preferences for alternative splicing and polyadenylation site variation among spliced COPs genes, in dependence of the termination site of the antisense transcript

Spliced COP genes with an antisense transcript not overlapping a sense transcript intron region, show a significant negative bias for alternative splicing

COPs genes

COPs with antisense gene ending 3,000-0 bp before the sense I/E boundary

p-value

Spliced genes

1,723

1,497

Alternatively spliced genes

268 (15.6%)

217 (14.5%)

0.0018

Spliced COPs genes with an antisense transcript overlapping a sense transcript intron region, show a significant positive bias for alternative splicing

COPs genes

COPs with an antisense gene ending 0-3,000 bp behind the sense I/E boundary

p-value

Gene with splicing

1,723

226

Alternative splicing

268 (15.6%)

51 (22.6%)

0.0018

COPs genes

COPs with an antisense gene ending > 40 bp behind the sense I/E boundary

p-value

Gene with splicing

1,723

129

Alternative splicing

268 (15.6%)

35 (27.1%)

0.00032

Alternatively spliced COPs sense genes with an antisense transcript ending more than 40 bp behind their last I/E boundary, show a positive bias for polyadenylation site variation

COPs genes

COPs with an antisense gene ending > 40 bp behind the sense I/E boundary

p-value

Alternatively spliced

268

35

Polyadenylation site variation

107 (39.9%)

25 (71.4%)

5.5e-05

Jen et al. Genome Biology 2005 6:R51   doi:10.1186/gb-2005-6-6-r51