Table 1. Noncanonical ORFs possibly detected in mass spectrometry data.
| Systematic name | Approaches used to find | Coordinates | Peptides detected (spectra count) | Best MSFragger expect score | Quantile of translation rate | Evidence of conservation | Strength of evidence** |
|---|---|---|---|---|---|---|---|
| YMR106W-A* | Standard MSFragger, MS-GF+, MaxQuant | chrXIII:480924–481187 | ISMEAINNFIK (1) | 8.66 × 10−6 | 0.9963 | None | Strong |
| YFR035W-A* | Standard MSFragger, MS-FG+ | chrVI:226260–226550 | HLNIPDLRFEK (2) | 1.04 × 10−7 | 0.995 | Conserved within genus | Strong |
| YPR195C-A* | MaxQuant | chrXVI: 930265–930405 | LSAMVLTK (1) | 1.79 × 10−4 | 0.61 | None | Weak |
| YOR109W-A* | Acetylation | ChrXV: 528606–528701 | LSLKCGCCSVCIPLNERR (1) | 8.37 × 10−6 | 0.27 | None | Weak |
| YIL059C | Non-enzymatic end | chrIX:246550–246915 | EFDFDVGYEEFVR (1) | 2.78 × 10−6 | 0.88 | Conserved with S. jurei | Strong |
| YNL155C-A* | Same-strand overlap | chrXIV: 341911–342135 | KQHTEWPIEENR (1), MIGLIVVPILFAIK (11) | 5.77 × 10−9 | 0.9963 | Conserved within genus | Strong |
*Assigned in this study.
**Assessed based on proteomic, translation, and evolutionary evidence.