Table 2. Summary information on the 18 genes detected at p-adjust < 0.0001 in all four analyses.
Column 3 indicates the number of distinct exonic regions (exons), known splice junctions (SJ) and novel splice junctions belonging to this gene, and columns 4–7 indicate the number of each feature type with statistically significant differential usage (# sig, p-adjust < 0.0001). The rightmost column indicates the least significant gene-wise adjusted p-value across the four analyses. *Genes previously known in the literature to exhibit differential isoform regulation between night and day in the rat pineal gland: Crem [23–25], Pde4b [26], and Atp7b [28].
| Gene Symbol | Locus | # Features (exons/ known SJ/ novel SJ) | # Sig. (exons / known SJ / novel SJ) | Least sig. gene-wise p-adjust | |||
|---|---|---|---|---|---|---|---|
| Ctrl Day/Night | Sham Day/Night | Untr vs NE | Untr vs DB | ||||
| Arsg | chr10:97771263-97863311(+) | 12/11/3 | 5/4/1 | 3/3/1 | 4/1/0 | 3/1/0 | 0 |
| Commd1 | chr14:107664254-107760191(-) | 3/2/4 | 1/1/3 | 1/1/3 | 3/1/3 | 2/1/3 | 0 |
| Crem* | chr17:57031765-57090888(+) | 21/15/5 | 19/8/3 | 16/6/2 | 18/9/1 | 19/9/1 | 0 |
| Dclk1 | chr2:144646307-144939389(+) | 21/20/0 | 18/17/0 | 18/17/0 | 16/8/0 | 11/7/0 | 0 |
| Ggcx | chr4:100277390-100293250(+) | 20/16/1 | 7/6/0 | 4/5/1 | 6/2/0 | 6/4/0 | 0 |
| Alox15 | chr10:56953690-56962161(-) | 14/13/10 | 0/1/5 | 0/1/3 | 0/0/1 | 0/1/3 | 4.62E-13 |
| Atp7b* | chr16:74865515-74947084(+) | 23/21/2 | 7/3/0 | 6/3/0 | 8/1/0 | 7/0/0 | 1.13E-12 |
| Ugp2 | chr14:106208175-106249103(-) | 13/10/3 | 1/1/0 | 1/1/0 | 1/1/0 | 1/1/0 | 2.04E-10 |
| Pde4b* | chr5:121952976-122136814(+) | 19/14/1 | 7/1/1 | 6/4/1 | 5/4/1 | 5/3/1 | 9.08E-10 |
| Ttc8 | chr6:122920316-122977132(+) | 18/16/6 | 2/1/3 | 2/1/4 | 1/1/1 | 2/1/1 | 7.26E-08 |
| Tsc22d1 | chr15:58554373-58658153(+) | 5/3/2 | 2/0/1 | 0/0/1 | 0/0/1 | 3/1/1 | 2.24E-07 |
| Eprs | chr13:103300931-103371577(+) | 38/35/2 | 36/26/0 | 21/17/0 | 8/5/0 | 8/5/0 | 2.62E-07 |
| Map3k5 | chr1:15412602-15613746(+) | 32/32/0 | 26/10/0 | 13/6/0 | 4/2/0 | 3/1/0 | 4.43E-07 |
| Btrc | chr1:265157378-265269837(+) | 14/13/1 | 1/0/0 | 2/1/0 | 1/0/0 | 1/0/0 | 6.23E-07 |
| Slc38a1 | chr7:137975548-138039984(-) | 19/16/6 | 0/0/2 | 2/0/2 | 0/0/2 | 0/0/2 | 2.11E-06 |
| Arhgap24 | chr14:8383315-8600424(-) | 10/8/4 | 0/0/1 | 1/0/2 | 0/0/2 | 3/1/3 | 1.54E-05 |
| Cbx6 | chr7:121050301-121058029(-) | 5/4/2 | 5/2/1 | 4/2/0 | 5/3/0 | 5/3/0 | 2.86E-05 |
| Pla2g4a | chr13:66849776-67206693(-) | 20/18/1 | 0/0/1 | 0/0/1 | 0/0/1 | 0/0/1 | 7.00E-05 |