ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR171
source: miRBase, original name: ptc-MIR171e (MI0002281)
Taxonomy by NCBI:
Populus trichocarpa Populus Saliceae Salicaceae Malpighiales fabids rosids core eudicotyledons eudicotyledons Magnoliophyta Spermatophyta Euphyllophyta Tracheophyta Embryophyta Streptophytina Streptophyta Viridiplantae Eukaryota cellular organisms
SEQUENCE & STRUCTURE| miRNA TGATTGAGCCGTGCCAATATC miRNA* TGTTGGCAGAGCTCAATCAAA mismatches: 2 bulges: 0 |
pre-miRNA
GTGGAAATTTGATGTTGGCAGAGCTCAATCAAATCAAAGCACTCAATGGTTGGGTTCTTTCATCTGATTGAGCCGTGCCAATATCGCATTAAAT
dot-bracket secondary structure
.....(((.(((((((((((..(((((((((.((.((((.(((((.....))))).)))).)).)))))))))..))))))))))).)))....
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record
evidence: cloned
references
[1] Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapm, Science. 313:1596-1604(2006)., "The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)"
[2] Lu S, Sun YH, Shi R, Clark C, Li L, Chiang VL, Plant Cell. 17:2186-2203(2005)., "Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis"
GTGGAAATTTGATGTTGGCAGAGCTCAATCAAATCAAAGCACTCAATGGTTGGGTTCTTTCATCTGATTGAGCCGTGCCAATATCGCATTAAAT
dot-bracket secondary structure
.....(((.(((((((((((..(((((((((.((.((((.(((((.....))))).)))).)).)))))))))..))))))))))).)))....
SIMILARITIES| miRBase vvi-MIR171a: 3e-16 PMRD ptc-miR171e: 2e-48 microPC miR171: 0.000001 | UniProt no hits RFAM MIR171_1: 1e-37 |
Identical with: ptc-miRf10903-akr from PMRD (MNEST052725) |
MOREmiRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record
evidence: cloned
references
[1] Tuskan GA, Difazio S, Jansson S, Bohlmann J, Grigoriev I, Hellsten U, Putnam N, Ralph S, Rombauts S, Salamov A, Schein J, Sterck L, Aerts A, Bhalerao RR, Bhalerao RP, Blaudez D, Boerjan W, Brun A, Brunner A, Busov V, Campbell M, Carlson J, Chalot M, Chapm, Science. 313:1596-1604(2006)., "The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)"
[2] Lu S, Sun YH, Shi R, Clark C, Li L, Chiang VL, Plant Cell. 17:2186-2203(2005)., "Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis"
