ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR166
source: miRBase, original name: ptc-MIR166d (MI0002221)
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 TCGGACCAGGCTTCATTCCCC miRNA* GGAATGTTGGCTGGCTCGAAG mismatches: 5 bulges: 0 |
pre-miRNA
CGTGAGTTGAGGGGAATGTTGGCTGGCTCGAAGCTTAAGCAAAGAGTTTTCTCTCAAGAAACAACTGTTAAGGCTTCGGACCAGGCTTCATTCCCCTCAA
CCAAT
dot-bracket secondary structure
..((.(((((((((((((..(.((((..((((((((.((((....(((((.......)))))...)))).))))))))..)))).)..))))))))))))
)))..
SIMILARITIES
MORE
miRNEST target predictions
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)"
CGTGAGTTGAGGGGAATGTTGGCTGGCTCGAAGCTTAAGCAAAGAGTTTTCTCTCAAGAAACAACTGTTAAGGCTTCGGACCAGGCTTCATTCCCCTCAA
CCAAT
dot-bracket secondary structure
..((.(((((((((((((..(.((((..((((((((.((((....(((((.......)))))...)))).))))))))..)))).)..))))))))))))
)))..
SIMILARITIES| miRBase ptc-MIR166f: 2e-39 PMRD ptc-miR166d: 6e-55 microPC miR166: 2e-30 | UniProt no hits RFAM mir-166: 2e-48 |
Identical with: ptc-miR166d from PMRD (MNEST051628) |
MOREmiRNEST target predictions
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)"
