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. 2013 Oct;14(10):916–923. doi: 10.1631/jzus.B1300006

Table 1.

C. sinensis miRNA identification by homolog search

New miRNA Query miRNA GenBank acc. No. Tissue type Arm SP EP ME Mature sequence* E value PL A+U (%) MFE (kcal/mol) MFEI
miR156 aly-miR157a-5p HS396956.1 Leaf 5′ 212 232 20/21 UUGACAGAAGAUAGAGAGCAu 1.00E−04 100 54.00 45.80 1.00
miR171a ptc-miR171k FS948108.1 Roots 3′ 273 293 20/21 GGAUUGAGCCGCGCCAAUAUu 1.00E−04 100 65.00 39.20 1.12
miR171b ptc-miR171k FS948109.1 Roots 5′ 163 143 20/21 GGAUUGAGCCGCGCCAAUAUu 1.00E−04 97 63.92 40.40 1.15
miR397 osa-miR397b CV699725.1 Leaf 5′ 99 79 21/21 UUAUUGAGUGCAGCGUUGAUG 3.00E−05 126 59.52 39.20 0.77
miR399 osa-miR399j FS958856.1 Young leaves 3′ 109 129 20/21 UGCCAAaGGAGAGUUGCCCUA 8.00E−03 103 51.46 52.80 1.06
miR2863 osa-miR2863a FS950435.1 Roots 5’ 37 57 18/21 UauaUAUUGUUGAAAUGGCUU 8.00E−03 85 64.71 21.50 0.72
miR2911a nta-miR2911 JK476023.1 Leaf 3′ 364 383 20/20 GGCCGGGGGACGGACUGGGA 1.00E−04 97 22.68 65.40 0.87
miR2911b nta-miR2911 FS953337.1 Shoot stems 3′ 177 196 20/20 GGCCGGGGGACGGACUGGGA 1.00E−04 97 23.71 69.20 0.94
miR5021a ath-miR5021 GW690847.1 Bud 3′ 256 237 18/20 aGAGAAGAAGAAGAAGAAAg 2.00E−03 195 55.90 71.90 0.84
miR5021b ath-miR5021 GE651759.1 Tender root 5′ 73 92 18/20 aGAGAAGAAGAAGAAGAAAg 2.00E−03 201 56.22 72.20 0.82
miR5368a gma-miR5368 GE653011.1 Tender root 3' 505 523 19/19 GGACAGUCUCAGGUAGACA 4.00E-04 163 42.33 76.10 0.81
miR5368b gma-miR5368 FS945766.1 Mature leaves 3′ 196 214 19/19 GGACAGUCUCAGGUAGACA 4.00E-04 144 42.36 68.50 0.83
miR6483a hbr-miR6483 HS398296.1 Leaf 5′ 253 232 21/22 UAUUGUAGAAAUUUUCgGGAUC 2.00E−03 101 62.38 29.80 0.78
miR6483b hbr-miR6483 JK714410.1 Leaf 5′ 303 282 21/22 UAUUGUAGAAAUUUUCgGGAUC 2.00E−03 110 63.64 30.00 0.75
*

Lowercase letters in mature sequence mean mismatch

SP: start point; EP: end point; ME: match extent; PL: pre-miRNA length; MFE: minimal folding free energy; MFEI: MFE index