Table 3 List of TAS-like loci predicted to be cleaved by conserved or novel miRNAs. Twenty-four TAS-like loci with their genomic locations and miRNA cleaving them are listed. PGSC transcript IDs and annotation for TAS-like loci that are present in genic regions is also mentioned. Two TAS-like loci present within StTm2 and StPHO2 genes (captured in bold) were used for further experimental validations
Sr. No. | TAS-like Locus | Genomic location of locus | Locus targeted by miRNA | Gene id | Gene annotation |
|---|---|---|---|---|---|
1 | Chr11:458098..458349 | Intergenic region | stu-miR5303g | PGSC0003DMT400034561 | Inositol monophosphatase 3 |
2 | Chr00:19041735..19041986 | Intergenic region | stu-miR8005a/b/c | None | None |
3 | Chr12:27420198..27420449 | Intergenic region | stu-miR8008a, stu-miR8009 | None | None |
4 | Chr06:5520530..5520781 | Exonic region | stu-miR482c | PGSC0003DMT400022440 | NBS-coding resistance gene protein |
5 | Chr02:33977738..33977989 | Exonic region | stu-miR399a-f | PGSC0003DMT400076435 | PHO2 |
6 | Chr00:14668823..14669074 | Intergenic region | stu-miR8005a/c; stu-miR8005b-3p | None | None |
7 | Chr00:39466733..39466984 | Intergenic region | stu-miR8005a/c; stu-miR8005b-3p | None | None |
8 | Chr00:41890891..41891142 | Intergenic region | stu-miR8005a/c; stu-miR8005b-3p | None | None |
9 | Chr09:15393324..15393575 | Exonic region | stu-miR6026-3p | PGSC0003DMT400051269 | Tm2 |
10 | Chr02:22364494..22364745 | Intergenic region | stu-miR7983-5p | None | Hydroxyproline-rich glycoprotein |
11 | Chr01:88411142..88411393 | Intergenic region | stu-miR5303a-f | None | Hypothetical gene of unknown function |
12 | Chr04:4747066..4747317 | Intergenic region | stu-novel-miR-124 | None | None |
13 | Chr09:46314301..46314552 | Exonic region | stu-novel-miR-213 | PGSC0003DMT400022135 | Disease resistance protein RGA4 |
14 | Chr10:45893671..45893922 | Exonic region | stu-novel-miR-263 | PGSC0003DMT400068569 | Cc-nbs-lrr resistant protein |
15 | Chr11:42040081..42040332 | Intergenic region | stu-novel-miR-272 | None | None |
16 | Chr11:38087726..38087977 | Exonic region | stu-novel-miR-272 | PGSC0003DMT400018940 | Disease resistance protein R3a |
17 | Chr11:6031307..6031558 | Intergenic region | stu-novel-miR-276 | None | None |
18 | Chr12:29516380..29516631 | Exonic region | stu-novel-miR-52, stu-novel-miR-53, stu-novel-miR-72 | PGSC0003DMT400086126 | Conserved gene of unknown function |
19 | Chr02:18433855..18434106 | Intergenic region | stu-novel-miR-71 | None | None |
20 | Chr08:54903243..54903494 | Intergenic region | stu-novel-miR-171 | None | None |
21 | Chr04:5836408..5836659 | Intergenic region | stu-novel-miR-124 | None | None |
22 | Chr12:27420198..27420449 | Intergenic region | stu-novel-miR-13 | None | None |
23 | Chr03:44097532..44097783 | Exonic region | stu-novel-miR-204 | PGSC0003DMT400063143 | Formin 20 |
24 | Chr08:9967120..9967371 | Intergenic region | stu-novel-miR-41, stu-novel-miR-230 | None | None |