ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR171_1
source: miRBase, original name: ptc-MIR171d (MI0002280)
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 AGATTGAGCCGCGCCAATATC miRNA* TGTTGGTGAGGTTCAATCCGA mismatches: 2 bulges: 0 |
pre-miRNA
AAAAGAAAGCGATGTTGGTGAGGTTCAATCCGAAGACAGATTTACACGAGTGAAAGTAAAATCCGATCTCAGATTGAGCCGCGCCAATATCACTTTTCAG
dot-bracket secondary structure
....(((((.((((((((((.(((((((((.((.(((.(((((..((........)).))))).).)))).))))))))).)))))))))).)))))...
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record
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"
AAAAGAAAGCGATGTTGGTGAGGTTCAATCCGAAGACAGATTTACACGAGTGAAAGTAAAATCCGATCTCAGATTGAGCCGCGCCAATATCACTTTTCAG
dot-bracket secondary structure
....(((((.((((((((((.(((((((((.((.(((.(((((..((........)).))))).).)))).))))))))).)))))))))).)))))...
SIMILARITIES| miRBase ptc-MIR171c: 6e-30 PMRD ptc-miR171d: 5e-52 microPC miR171: 0.00000000000002 | UniProt no hits RFAM MIR171_1: 1e-43 |
Identical with: ptc-miRf10666-akr from PMRD (MNEST052488) |
MOREmiRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record
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"
