miRNEST 2.0: an integrative microRNA resource miRNEST 2.0, an integrative microRNA resource :: Browse

Species belonging to selected taxon:

Populus trichocarpa



ABOUT THIS RECORD

ID: MNEST041301
species: 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

View larger
pre-miRNA
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)

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"




Liczniki na strone;