Table 1 Forty-five miRNA loci identified and their respective PmiREN database matches with known plant small RNAs as well as the top predicted hit in the S. purpurea genome using psRNATarget
From: Integrative genomics reveals paths to sex dimorphism in Salix purpurea L
ID | Chr | Start | End | Match | log2 (M:F) | FDR | Top Predicted Target | Top Target Description |
|---|---|---|---|---|---|---|---|---|
Spu-miR12420 | 1 | 5390167 | 5390252 | N/A | −0.731 | N/A | Sapur.003G010300.3 | helix loop helix DNA-binding domain protein |
Spu-miR167a | 2 | 2546206 | 2546454 | Ptr-miR167a | 2.265 | 6.754E-24 | Sapur.016G022200.1 | short-chain dehydrogenase-reductase B |
Spu-miR12421 | 2 | 6755707 | 6755829 | N/A | −0.062 | 8.278E-01 | Sapur.008G043000.2 | DNA/RNA-binding protein Kin17 motif protein |
Spu-miR171a | 4 | 476403 | 476580 | Ptr-miR171i | 0.751 | 4.385E-05 | Sapur.010G159800.2 | triosephosphate isomerase |
Spu-miR399a | 4 | 3155960 | 3156093 | Ath-miR399a | 0.534 | 6.197E-01 | Sapur.011G036300.2 | phosphate 2 |
Spu-miR399b | 4 | 3158638 | 3158815 | Ath-miR399a | 0.403 | 4.865E-01 | Sapur.011G036300.2 | phosphate 2 |
Spu-miR3627a | 4 | 9319512 | 9319746 | Mes-miR3627 | 0.211 | 5.732E-01 | Sapur.005G170700.1 | autoinhibited calcium ATPase |
Spu-miR395a | 4 | 15610953 | 15611114 | Ptr-miR395a | 0.601 | 2.029E-01 | Sapur.002G074200.2 | sulfate/bicarbonate/oxalate exchanger and transporter sat-1 |
Spu-miR395b | 4 | 15612449 | 15612536 | Ptr-miR395a | 0.551 | 3.850E-01 | Sapur.002G074200.2 | sulfate/bicarbonate/oxalate exchanger and transporter sat-1 |
Spu-miR395c | 4 | 15628880 | 15629146 | Ptr-miR395a | 0.747 | 9.340E-02 | Sapur.002G074200.2 | sulfate/bicarbonate/oxalate exchanger and transporter sat-1 |
Spu-miR167b | 5 | 2940103 | 2940284 | Ptr-miR167a | 2.069 | 2.510E-23 | Sapur.016G022200.1 | short-chain dehydrogenase-reductase B |
Spu-miR166a | 5 | 3924142 | 3924378 | Ptr-miR166a | −0.728 | 4.897E-04 | Sapur.003G027100.1 | Homeobox luecine zipper HB-15 |
Spu-miR167c | 5 | 15569344 | 15569484 | Ptr-miR167a | 1.791 | 3.386E-22 | Sapur.016G022200.1 | short-chain dehydrogenase-reductase B |
Spu-miR171b | 6 | 3831004 | 3831090 | Gma-miR171l | 1.445 | 3.383E-03 | Sapur.010G081700.2 | O-Glycosyl hydrolases family 17 protein |
Spu-miR171c | 6 | 3835891 | 3836056 | Gma-miR171l | 1.578 | 5.840E-03 | Sapur.010G081700.2 | O-Glycosyl hydrolases family 17 protein |
Spu-miR12422 | 6 | 4882875 | 4883149 | N/A | −0.169 | 5.722E-01 | Sapur.016G204200.2 | enoyl-CoA hydratase/isomerase D |
Spu-miR2111 | 6 | 5427587 | 5427760 | Ptr-MIR2111a | −0.672 | 1.418E-02 | Sapur.003G163400.1 | putative casein kinase |
Spu-miR390a | 6 | 6180906 | 6181056 | Ptr-miR390a | 0.020 | 1.000E + 00 | Sapur.006G039400.1 | LRR receptor-like tyrosine-kinase |
Spu-miR164a | 6 | 6317292 | 6317530 | Ptr-miR164a | 0.896 | 3.360E-07 | Sapur.15 WG015900.1 | NAC domain containing protein 100 |
Spu-miR156a | 6 | 13846849 | 13846964 | Mac-miR156f | 2.084 | 2.512E-15 | Sapur.15 WG078700.4 | Squamosa promoter-like 15 |
Spu-miR156b | 6 | 19006933 | 19007076 | Ptr-miR156a | 2.773 | 1.038E-17 | Sapur.15WG078700.4 | Squamosa promoter-like 15 |
Spu-miR403 | 8 | 5423300 | 5423499 | Ptr-miR403a | −0.299 | 5.623E-02 | Sapur.012G088900.1 | Argonaute 2 |
Spu-miR167d | 8 | 8894197 | 8894487 | Ptr-miR167a | 1.104 | 9.631E-12 | Sapur.016G022200.1 | short-chain dehydrogenase-reductase B |
Spu-miR166b | 8 | 9245708 | 9245886 | Ptr-miR166o | −0.314 | 1.128E-01 | Sapur.006G067500.2 | Basic-leucine zipper (bZIP) transcription factor |
Spu-miR12423 | 8 | 12743624 | 12743755 | N/A | 0.300 | 6.822E-01 | Sapur.011G106700.4 | snapin/pallidin protein |
Spu-miR172a | 9 | 2892935 | 2893114 | Ptr-miR172a | 1.193 | 6.288E-05 | Sapur.002G186500.2 | GTP-binding protein, putative |
Spu-miR390b | 9 | 5612879 | 5613152 | Ptr-miR390a | −2.031 | 1.640E-39 | Sapur.006G039400.1 | LRR receptor-like tyrosine-kinase |
Spu-miR403a | 10 | 10076881 | 10077088 | Ptr-miR403a | −0.335 | 3.498E-02 | Sapur.012G088900.1 | Argonaute 2 |
Spu-miR156c | 12 | 3197390 | 3197490 | Aco-miR156m | 3.648 | 5.405E-17 | Sapur.017G006900.1 | aminophospholipid ATPase 2 |
Spu-miR171c | 12 | 8351984 | 8352111 | Ath-miR171b | 0.411 | 1.412E-01 | Sapur.005G100800.1 | GRAS family transcription factor |
Spu-miR399 | 12 | 10545966 | 10546254 | Ath-miR399a | 0.850 | 3.106E-02 | Sapur.011G036300.2 | phosphate 2 |
Spu-miR393 | 12 | 10816595 | 10816773 | Aof-miR393a | 3.748 | 2.366E-47 | Sapur.016G197800.1 | transport inhibitor response protein |
Spu-miR164 | 13 | 842171 | 842291 | Ptr-miR164a | 0.805 | 2.922E-03 | Sapur.15WG015900.1 | NAC domain containing protein 100 |
Spu-miR319 | 13 | 14611610 | 14611886 | Ath-miR1319a | 0.320 | 8.193E-02 | Sapur.016G120400.1 | transcription factor Myb3, putative |
Spu-miR162 | 15W | 6070157 | 6070284 | Ptr-miR162a | 0.397 | 9.255E-03 | Sapur.002G137200.1 | endoribonuclease dicer-like protein |
Spu-miR6445 | 15W | 9647264 | 9647437 | Ptr-miR6445a | 0.417 | 4.988E-03 | Sapur.009G127600.1 | ribosomal protein L32 |
Spu-miR1446-1 | 15W | 13324567 | 13324662 | Ptr-miR1446a | 0.367 | 6.057E-01 | Sapur.011G018900.2 | alpha-farnesene synthase |
Spu-miR156d | 15Z | 5200310 | 5200523 | Aco-miR156m | 3.574 | 5.520E-17 | Sapur.017G006900.1 | aminophospholipid ATPase 2 |
Spu-miR1446-2 | 15Z | 10970968 | 10971061 | Ptr-miR1446a | 0.060 | 9.441E-01 | Sapur.011G018900.2 | alpha-farnesene synthase |
Spu-miR160a | 16 | 80655 | 80741 | Ptr-miR160a | 1.069 | 2.886E-01 | Sapur.008G028800.1 | Auxin Response Factor 16 |
Spu-miR395d | 16 | 11568408 | 11568564 | Ptr-miR395a | 0.706 | 9.748E-02 | Sapur.002G074200.1 | sulfate/bicarbonate/oxalate exchanger and transporter sat-1 |
Spu-miR12424 | 16 | 13458436 | 13458691 | N/A | 0.536 | 5.116E-01 | Sapur.008G128400.1 | Serine/Threonine kinase domain protein |
Spu-miR172b | 16 | 15596694 | 15596955 | Ptr-miR172a | 2.318 | 7.535E-04 | Sapur.012G062700.1 | armadillo repeat only 4 protein |
Spu-miR160b | 16 | 30160705 | 30160920 | Ptr-miR160a | 0.730 | 9.118E-02 | Sapur.008G028800.1 | Auxin Response Factor 16 |
Spu-miR396 | 18 | 10287527 | 10287770 | Mac-miR396t | 0.860 | 2.360E-06 | Sapur.007G075900.1 | hypothetical protein |
