ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR164
source: PMRD, original name: ptc-miR164c
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 TGGAGAAGCAGGGCACGTGCA miRNA* CACGTGCTCCCCTTCTCCAAC mismatches: 2 bulges: 0 |
pre-miRNA
TAGCTCTTGCTGGAGAAGCAGGGCACGTGCAAGCTCTCTCCTCAAGCTTTCCTTGCACGTGCTCCCCTTCTCCAACATGGGT
dot-bracket secondary structure
..((((.((.((((((((..(((((((((((((....((.....)).....)))))))))))))..)))))))).)).))))
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
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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"
TAGCTCTTGCTGGAGAAGCAGGGCACGTGCAAGCTCTCTCCTCAAGCTTTCCTTGCACGTGCTCCCCTTCTCCAACATGGGT
dot-bracket secondary structure
..((((.((.((((((((..(((((((((((((....((.....)).....)))))))))))))..)))))))).)).))))
SIMILARITIES| miRBase ptc-MIR164c: 2e-41 PMRD vvi-miR164a: 0.00000000006 microPC miR164: 0.00001 | UniProt no hits RFAM MIR164: 4e-40 |
Identical with: ptc-MIR164c from miRBase (MNEST041318) |
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"
