Table 3 Relative expression of the set of isoforms of four loci (TIMP1, ITGA5, ANXA2 and LITAF) in HIGH (N = 26) vs LOW (N = 26) pigsa
Feature ID | Feature transcript ID | Transcript ID | Length (bp) | Typeb | Relative expression mean (%) | CLC Bio | STAR/RSEM/DESeq2 | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|
Log2 (FC) | P-value | q-value | Log2 (FC) | P-value | q-valuec | ||||||
ENSSSCG00000004578 | ENSSSCT00000034155 | ANXA2–201 | 1609 | Protein coding | 0.64 | 0.21 | 6.77E-01 | 1.00E + 00 | 0.07 | 9.20E-01 | NA |
ENSSSCG00000004578 | ENSSSCT00000005057 | ANXA2–202 | 1455 | Protein coding | 99.36 | 0.70 | 3.32E-06 | 7.23E-03 | 0.69 | 4.56E-06 | 1.58E-03 |
ENSSSCG00000000293 | ENSSSCT00000000314 | ITGA5–201 | 4445 | Protein coding | 99.00 | 0.85 | 2.64E-05 | 2.82E-02 | 0.85 | 2.54E-06 | 1.21E-03 |
ENSSSCG00000000293 | ENSSSCT00000035821 | ITGA5–203 | 1255 | NMD | 0.34 | −0.03 | 9.18E-01 | 1.00E + 00 | – | – | – |
ENSSSCG00000000293 | ENSSSCT00000034427 | ITGA5–204 | 1013 | NMD | 0.71 | −0.08 | 1.00E + 00 | 1.00E + 00 | – | – | – |
ENSSSCG00000000293 | ENSSSCT00000033141 | ITGA5–205 | 766 | NMD | 0.48 | −0.29 | 1.00E + 00 | 1.00E + 00 | −0.01 | 9.97E-01 | NA |
ENSSSCG00000012277 | ENSSSCT00000013426 | TIMP1–001 | 931 | Protein coding | 97.86 | 2.57 | 4.61E-07 | 1.85E-03 | 0.79 | 2.01E-04 | 1.32E-02 |
ENSSSCG00000012277 | ENSSSCT00000033796 | TIMP1–002 | 598 | Protein coding | 0.38 | 1.12 | 5.56E-01 | 1.00E + 00 | 0.38 | 8.98E-01 | NA |
ENSSSCG00000012277 | ENSSSCT00000034602 | TIMP1–003 | 641 | Protein coding | 1.57 | 1.19 | 8.47E-01 | 1.00E + 00 | −0.19 | 7.39E − 01 | NA |
ENSSSCG00000012277 | ENSSSCT00000036308 | TIMP1–004 | 173 | Protein coding | 0.19 | 3.05 | 4.21E-01 | 1.00E + 00 | 0.18 | 9.52E-01 | NA |
ENSSSCG00000024982 | ENSSSCT00000036552 | LITAF-201 | 2190 | Protein coding | 88.45 | 1.01 | 1.02E-04 | 4.82E-02 | 0.79 | 1.21E-04 | 1.04E-02 |
ENSSSCG00000024982 | ENSSSCT00000025103 | LITAF-202 | 2370 | Protein coding | 11.55 | -0.04 | 1.00E + 00 | 1.00E + 00 | 0.49 | 7.52E-01 | NA |