Table 3 Selected alternatively spliced Wnt pathway genes. NAE: the number of ESTs that predict the alternative splice form; NCE stands for the number of ESTs confirming the normal form. The values NAEcolcan and NCEcolcan give the respective number of ESTs deriving from colon cancer. The selection criteria for the several splice sites are given in the 8th column (AE: alternatively spliced ESTs, CE: constitutive normally spliced ESTs).
Gene | Identifier (RefSeq/EASED) | AS-event | NAE/NAEcolcan | NCE/NCEcolcan | Selection criteria | ||
|---|---|---|---|---|---|---|---|
CTNNB1 (a) Beta-catenin | NM_001904/ENST00000301 829 splice site 4 | truncated exon 16 (160 bp skipped) | 34 | 7 | 47 | 2 | (i) higher number of NAEcolcan |
CTNNB1 (b) Beta-catenin | NM_001904/ENST00000301 829 splice site 5 | retained intron (303 bp inserted) | 6 | 0 | 18 | 1 | (i) 100% cancer AE (81% cancer CE) (ii) unpublished splice variant |
CtBP1 C-terminal binding protein 1 | NM_001328/ENST00000336 543 splice site 2 | retained intron (194 bp inserted) | 32 | 2 | 23 | 0 | (i) higher number of NAEcolcan (ii) no CE from gastroint. tissues |
GSK-3β Glycogen synthase kinase-3 beta | NM_002093/ENST00000264 235 splice site 1 | alternative exon 9 (39 bp skipped) | 26 | 2 | 1 | 0 | (i) higher number of NAEcolcan (ii) 100% AE from cancer (no annotation for CE) |
Axin-1 | NM_003502/ENST00000262 320 splice site 1 | alternative exon 8 (108 bp skipped) | 18 | 0 | 5 | 0 | (i) 10 AE from cancer (1 CE from cancer) (ii) 2 AE from stomach (0 CE from gastroint. tissues) |
LRP5 Low-density lipoprotein receptor-related protein 5 precursor | NM_002335/ENST00000294 304 splice site 2 | alternative exon 5 (132 bp skipped) | 4 | 0 | 4 | 0 | (i) 100% cancer AE (67% cancer CE) (ii) unpublished splice variant |