ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR398
source: PMRD, original name: ptc-miR398c
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 TGTGTTCTCAGGTCGCCCCTG miRNA* GGAGCGACCTGAAATCACATG mismatches: 4 bulges: 0 |
pre-miRNA
AGGATTCCTACAGGAGCGACCTGAAATCACATGTGGGCTGCACCCTCCTGGGTTATCTTGAGCAACATGTGTTCTCAGGTCGCCCCTGCCGGGCTTT
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)"
AGGATTCCTACAGGAGCGACCTGAAATCACATGTGGGCTGCACCCTCCTGGGTTATCTTGAGCAACATGTGTTCTCAGGTCGCCCCTGCCGGGCTTT
dot-bracket secondary structure
.....(((..((((.(((((((((...(((((((..(((.(((((....))))......)))).)))))))...))))))))).))))..)))....
SIMILARITIES| miRBase ptc-MIR398c: 3e-50 PMRD ptc-miR398b: 0.00000000008 microPC miR398: 2e-36 | UniProt no hits RFAM MIR398: 1e-16 |
Identical with: ptc-MIR398c from miRBase (MNEST041447) |
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)"
