ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR159
source: miRBase, original name: ptc-MIR159c (MI0002197)
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 TTTGGATTGAAGGGAGCTCTA miRNA* GAGCTCCTTGAAGTCCAATAGA mismatches: 2 bulges: 1 |
pre-miRNA
GATTAGGGAGTGGAGCTCCTTGAAGTCCAATAGAGGTTCTTGCTGGGTAGATTAAGCTGCTAAGCTATGGATCCACAGTCCTATCTATCAACCGAAGGAT
AGGTTTGCGGCTTGCATATCTCAGGAGCTTTATTGCCTAATGTTAGATCCCTTTTTGGATTGAAGGGAGCTCTAAACCCATAA
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"
GATTAGGGAGTGGAGCTCCTTGAAGTCCAATAGAGGTTCTTGCTGGGTAGATTAAGCTGCTAAGCTATGGATCCACAGTCCTATCTATCAACCGAAGGAT
AGGTTTGCGGCTTGCATATCTCAGGAGCTTTATTGCCTAATGTTAGATCCCTTTTTGGATTGAAGGGAGCTCTAAACCCATAA
dot-bracket secondary structure
.....(((..(((((((((((..(((((((.(((((.(((.(((((((((...(((((.((.((.((((.(.((.(((.(((((((.((....)).))))
))).))).))..).)))).)).)).)))))..)))))))..)).)))..))))))))))))..)))))))))))..)))....
SIMILARITIES| miRBase ptc-MIR159a: 7e-99 PMRD ptc-miR159c: 3e-101 microPC miR159: 1e-82 | UniProt no hits RFAM MIR159: 6e-100 |
Identical with: ptc-miR159c from PMRD (MNEST051604) |
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"
