ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR160
source: PMRD, original name: ptc-miR160g
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 TGCCTGGCTCCCTGGATGCCA miRNA* GCATCAGAGGAGTCATGCAGG mismatches: 1 bulges: 2 |
pre-miRNA
CGGGATCAATCTGCCTGGCTCCCTGGATGCCAACTAAGAAATTTGTCGAGTGGTCTTGACTCTTCATAGTTGGCATCAGAGGAGTCATGCAGGTCCAAC
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"
CGGGATCAATCTGCCTGGCTCCCTGGATGCCAACTAAGAAATTTGTCGAGTGGTCTTGACTCTTCATAGTTGGCATCAGAGGAGTCATGCAGGTCCAAC
dot-bracket secondary structure
).((((....((((.((((((((((.((((((((((.(((....((((((....))))))..))).))))))))))))).))))))).))))))))...
SIMILARITIES| miRBase ptc-MIR160g: 8.0E-51 PMRD ptc-miRf11249-akr: 3.0E-41 microPC no hits | UniProt no hits RFAM 0mir-160: 4.0E-10 |
Identical with: ptc-miRf11249-akr from PMRD (MNEST053071), ptc-MIR160g from miRBase |
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"
