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ABOUT THIS RECORD

ID: MNEST051604
species: Populus trichocarpa
miRNA family: MIR159
source: PMRD, original name: ptc-miR159c

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

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pre-miRNA
GATTAGGGAGTGGAGCTCCTTGAAGTCCAATAGAGGTTCTTGCTGGGTAGATTAAGCTGCTAAGCTATGGATCCACAGTCCTATCTATCAACCGAAGGAT
AGGTTTGCGGCTTGCATATCTCAGGAGCTTTATTGCCTAATGTTAGATCCCTTTTTGGATTGAAGGGAGCTCTAAACCCATAA


dot-bracket secondary structure
.....(((..(((((((((((..(((((((.(((((.(((.(((((((((...(((((.((.((.((((.(.((.(((.(((((((.((....)).))))
))).))).))..).)))).)).)).)))))..)))))))..)).)))..))))))))))))..)))))))))))..)))....



SIMILARITIES
miRBase ptc-MIR159c: 3e-101

PMRD ptc-miR159a: 7e-99

microPC miR159: 1e-82
UniProt no hits

RFAM MIR159: 6e-100

Identical with: ptc-MIR159c from miRBase (MNEST041301)

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"




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