Table 1 Reports those TCs or singletons that include both a miRNA precursor sequence and one or more miRNA target sites
Species name | Scientific name | Sequence identifier | Annotation from DFCI Gene Index | miRNA family | Target site (+/-) | Precursor site |
|---|---|---|---|---|---|---|
Arabidopsis | Arabidopsis thaliana | TC360779 | pentatricopeptide (PPR) repeat-containing protein | 5652 | 1102–1122 | 261-708 (+/-) |
161 | 1093–1113 | |||||
400 | 1314–1334 | |||||
TC383702 | 5636 | 89–166 (+/−) | ||||
173 | 444–465 | |||||
Barley | Hordeum vulgare | GH228935 | MIKC-type MADS-box transcription factor WM32A | 444 | 246–266 | 280–393 (+/+) |
Cotton | Gossypum hirsutum | TC244560 | 2949 | 366–547 (+/−) | ||
399–511 (+/−) | ||||||
3476 | 469–488 | |||||
TC273521 | Uncharacterized protein YJR115W | 2949 | 1544–1723 (+/−) | |||
1576–1689 (+/−) | ||||||
3476 | 1647–1666 | |||||
Maize | Zea mays | TC498468 | Transcriptional regulator, TetR family | 168 | 42–145 (+/+) | |
396 | 814–833 | |||||
Moss | Physcomitrella patens | NP13127877 | 1219 | 535–555 | 263–414 (+/−) | |
Medicago truncatula | Medicago truncatula | EX529600 | 2629 | 171–231 (+/−) | ||
2627 | 173–194 | |||||
NP7251801 | 5241 | 1186–1260 (+/+) | ||||
1510 | 674–694 | |||||
5242 | 1341–1361 | |||||
2678 | 86–106 | |||||
NP7252398 | 5241 | 1163–1280 (+/+) | ||||
1186–1260 (+/+) | ||||||
1189–1255 (+/+) | ||||||
1510 | 674–694 | |||||
5242 | 1341–1361 | |||||
2678 | 86–106 | |||||
NP7252404 | 5241 | 1189–1255 (+/+) | ||||
1510 | 674–694 | |||||
2678 | 86–106 | |||||
NP7254391 | 2674 | 467–760 (+/+) | ||||
2089 | 200–221 | |||||
Moss | Physcomitrella patens | TC19973 | RNA polymerase II largest subunit | 899 | 323–544 (+/+) | |
2083 | 416–436 | |||||
217–236 | ||||||
TC24438 | Predicted protein | 1062 | 378–561 (+/+) | |||
529 | 581–600 | |||||
TC27593 | Ribulose bisphosphate carboxylase small chain | 899 | 48–269 (+/–) | |||
2083 | 354–374 | |||||
154–174 | ||||||
Rice | Oryza sativa | CB677501 | Os05g0439200 protein | 156/157 | 219–338 (+/+) | |
252–352 (+/+) | ||||||
168 | 217–236 | |||||
CX099912 | 156 | 187–351 (+/+) | ||||
220–320 (+/+) | ||||||
168 | 205–224 | |||||
EG709456 | Conserved protein | 2118 | 109–285 (+/+) | |||
1869 | 239–259 | |||||
CA760441 | 395 | 539–559 | 373–441 (+/−) | |||
230–397 (+/−) | ||||||
87–154 (+/−) | ||||||
Soybean | Glycine max | BW657280 | Transcriptional regulator, MarR family | 4414 | 164–291 (+/+) | |
159/319 | 123–144 | |||||
TC425684 | Chromosome chr14 scaffold_190, whole genome shotgun sequence | 4409 | 479–539 (+/+) | |||
5372 | 346–410 (+/+) | |||||
5674 | 373–393 | |||||
TC428562 | Transcriptional regulator, MarR family | 4414 | 563–690 (+/+) | |||
319 | 522–543 | |||||
TC442024 | MATE efflux family protein | 159/319 | 324–343 | 358–460 (+/+) | ||
TC443643 | 5668 | 717–829 (+/−) | ||||
1510 | 697–717 | |||||
TC451566 | 5038 | 424–574 (+/+) | ||||
482–556 (+/+) | ||||||
5670 | 567–586 | |||||
Spruce | Picea abies | EX343185 | 3700 | 281–358 (+/+) | ||
947 | 215–236 | |||||
EX369017 | 3700 | 217–294 (+/+) | ||||
947 | 151–172 | |||||
Wheat | Triticum aestivum | TC369361 | Calmodulin TaCaM2-1 | 1118 | 727–749 | 918–1057 (+/+) |
TC370181 | Calmodulin TaCaM2-3 | 1118 | 644–666 | 835–974 (+/+) |