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Species belonging to selected taxon:

Populus deltoides, Populus euphratica, Populus nigra, Populus tremula, Populus tremula x Populus alba, Populus tremula x Populus tremuloides, Populus tremuloides, Populus trichocarpa x Populus nigra, Populus x canadensis, Populus trichocarpa, Populus trichocarpa x Populus deltoides



ABOUT THIS RECORD

ID: MNEST051616
species: Populus trichocarpa
miRNA family: MIR162
source: PMRD, original name: ptc-miR162a

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
TCGATAAACCTCTGCATCCAG

miRNA*
GGAGGCAGCGGTTCATCGATC

mismatches: 3
bulges: 0

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pre-miRNA
TGGGAAGACACTGGAGGCAGCGGTTCATCGATCTCTTCCTGGCCAATTTTTTGTTTAGCACGAAAAACATGAACCGATCGATAAACCTCTGCATCCAGCG
CTTCCTT


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



SIMILARITIES
miRBase ptc-MIR162a: 4e-56

PMRD ptc-miRf10578-akr: 9e-54

microPC miR162: 1e-43
UniProt no hits

RFAM MIR162_2: 2e-45

Identical with: ptc-miRf10577-akr from PMRD (MNEST052399)

MORE

miRNEST target predictions: none
non-miRNEST targets
HuntMi prediction: true miRNA
additional data
download this record

references

[1] Dezulian T, Palatnik JF, Huson DH, Weigel D, http://genomebiology.com/2005/6/11/p13 (2005)., "Conservation and divergence of microRNA families in plants"
[2] 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)"
[3] 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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