Table 1.
Triggers of PHAS loci in strawberry
| PHAS ID | Putative function | Overlapping gene ID (annotation) | miRNA trigger | miRNA length |
|---|---|---|---|---|
| PHAS21-4 | CSC1-like protein | maker-Fvb1-2-snap-gene-74.69 | miR11301a/b/c; miR11285a/b | 21;22 |
| PHAS21-8 | CSC1-like protein | maker-Fvb1-3-snap-gene-60.54 | miR11301a/b/c; miR11285a/b | 21;22 |
| PHAS21-9 | PPR | Intergenic | miR11285a/b | 22 |
| PHAS21-10 | ncRNA | Intergenic | miR482a/b/y | 22/22/21 |
| PHAS21-13 | NULL | maker-Fvb2-1-augustus-gene-234.53 (E3 ubiquitin-protein ligase RNF126-like) | miR482n/s/x; miR2118b | 22 |
| PHAS21-17 | ncRNA | maker-Fvb3-1-augustus-gene-207.32 | miRN14 | 21 |
| PHAS21-18 | ncRNA | maker-Fvb3-1-augustus-gene-207.33 | miRN14 | 21 |
| PHAS21-23 | PPR | augustus_masked-Fvb3-2-processed-gene-267.11 (PPR); augustus_masked-Fvb3-2-processed-gene-267.12 (PPR) | miR11301a/b/c; miR11285a/b; miR171d/e/f | 21; 22 |
| PHAS21-25 | uncharacterized mRNA | Intergenic | miR482a/b | 22 |
| PHAS21-26 | ncRNA | Intergenic | miRN14 | 21 |
| PHAS21-27 | ncRNA | Intergenic | miRN14 | 21 |
| PHAS21-28 | PPR |
snap_masked-Fvb3-4-processed-gene-39.28 (PPR); maker-Fvb3-4-snap-gene-39.55 (PPR) |
miR11301a/b/c | 21 |
| PHAS21-29 | ASA1 | augustus_masked-Fvb3-4-processed-gene-44.0 (ASA1) | miR156n | 20 |
| PHAS21-30 | ncRNA | maker-Fvb3-4-augustus-gene-194.36 | miRN14 | 21 |
| PHAS21-33 | HLCS | maker-Fvb4-1-snap-gene-75.30 | miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-34 | NULL | Intergenic | miRN11a/b/c | 22 |
| PHAS21-36 | ncRNA | Intergenic | miR11301a/b/c; miR164c | 21; 20 |
| PHAS21-39 | NULL | Intergenic | miR11286a; miRN11a/b/c | 21; 22 |
| PHAS21-41 | TAS3-like | maker-Fvb4-3-augustus-gene-122.25 | miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-42 | NULL | snap_masked-Fvb4-3-processed-gene-219.12 | miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-43 | NULL | Intergenic | miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-44 | NULL | Intergenic | miR11285a/b | 22 |
| PHAS21-47 | TAS3-like | maker-Fvb4-4-augustus-gene-90.46 | miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-48 | NULL | maker-Fvb4-4-snap-gene-187.25 (E3 ubiquitin-protein ligase XBAT32) | miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-50 | MIR159c | Intergenic | miR319a/b/c/d/e/f/g/h; miR159a/b/c/d/e/f/g/h/i/j/k/l | 20; 21 |
| PHAS21-54 | MIR159c | Intergenic | miR319a/b/c/d/e/f/g/h; miR159a/b/c/d/e/f/g/h/i/j/k/l | 20; 21 |
| PHAS21-56 | MIR159c | Intergenic | miR319a/b/c/d/e/f/g/h; miR159a/b/c/d/e/f/g/h/i/j/k/l | 20; 21 |
| PHAS21-57 | NULL | maker-Fvb6-1-augustus-gene-4.51 | miR482p/t | 21 |
| PHAS21-60 | ncRNA | augustus_masked-Fvb6-1-processed-gene-36.17 (CM3) | miR482p/t | 21 |
| PHAS21-62 | NULL | Intergenic | miR390a/b/c/d/e/f/g/h/i; miR482c/f/h/u/v/w | 21 |
| PHAS21-63 | NULL | Intergenic | miR395a/b/c/d/e/f/g/h/i/j/k/l/m/n/o/p; miRN3 | 21 |
| PHAS21-65 | ncRNA | snap_masked-Fvb6-1-processed-gene-319.21 | miR482n/s/x; miR2118b | 22 |
| PHAS21-66 | ncRNA | Intergenic | miRN11a/b/c; miR482d/e/g | 22; 21 |
| PHAS21-67 | NULL | Intergenic | miR395a/b/c/d/e/f/g/h/i/j/k/l/m/n/o/p; miRN3 | 21 |
| PHAS21-68 | NULL | maker-Fvb6-2-snap-gene-237.55 | miR482c/d/e/f/g/h/u/v/w/x; miR2118b | 21; 22 |
| PHAS21-69 | NULL | augustus_masked-Fvb6-2-processed-gene-304.5 (CM3) | miR482p/t | 21 |
| PHAS21-73 | NULL | maker-Fvb6-3-augustus-gene-30.84 | miR482p/t | 21 |
| PHAS21-74 | NULL | Intergenic | miR482c/f/h/u/v/w; miR390a/b/c/d/e/f/g/h/i | 21 |
| PHAS21-76 | uncharacterized mRNA | maker-Fvb6-3-snap-gene-381.45 | miR11287a/b; miR482n/s/x; miR2118b; miRN14; miR7125a/b | 21; 22 |
| PHAS21-81 | 40S ribosomal protein S29 | snap_masked-Fvb7-4-processed-gene-5.26 | miRN11a/b/c | 22 |
| PHAS24-2 | ncRNA | Intergenic | miRN29 | 21 |
| PHAS24-11 | CSC1-like protein | Intergenic | miR11285a/b | 22 |
| PHAS24-14 | NULL | Intergenic | miR482d/e/g | 21 |
| PHAS24-19 | uncharacterized mRNA | Intergenic | miR172a | 20 |
| PHAS24-26 | uncharacterized mRNA | Intergenic | miR172a | 20 |
| PHAS24-29 | ncRNA | Intergenic | miRN14 | 21 |
| PHAS24-30 | ncRNA | Intergenic | miRN14 | 21 |
| PHAS24-42 | uncharacterized mRNA | Intergenic | miR11288b/e/i/l/n; miR395a/b/c/d/e/f/g/h/i/j/k/l/m/n/o/p | 21 |
| PHAS24-44 | uncharacterized mRNA | Intergenic | miR6275a/b/c/d | 21 |
| PHAS24-47 | ncRNA | maker-Fvb4-3-snap-gene-7.49 (RNA helicase) | miR156r/w; miRN16 | 20; 22 |
| PHAS24-71 | uncharacterized mRNA | Intergenic | miR172a | 20 |
| PHAS24-74 | ncRNA | Intergenic | miRN29 | 21 |