ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR172
source: miRBase, original name: ptc-MIR172b (MI0002288)
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 AGAATCTTGATGATGCTGCAT miRNA* GGAGCATCATCAAGATTCACA mismatches: 2 bulges: 0 |
pre-miRNA
TTGTTTGCGGGTGGAGCATCATCAAGATTCACATGCAAATGCACGGCCGGTGATGTTAAGAGTTAAATCTTTCTTTGTTTCTGTTCATCTGCCAAAGTTC
TTTGGAAGTGAGAATCTTGATGATGCTGCATCGGCAATAA
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)"
TTGTTTGCGGGTGGAGCATCATCAAGATTCACATGCAAATGCACGGCCGGTGATGTTAAGAGTTAAATCTTTCTTTGTTTCTGTTCATCTGCCAAAGTTC
TTTGGAAGTGAGAATCTTGATGATGCTGCATCGGCAATAA
dot-bracket secondary structure
....((((.((((.((((((((((((((((.(((.((((.((..(((.(((((.....((((.((((......)))).))))..))))).)))...))..
))))...))).)))))))))))))))).)))).))))...
SIMILARITIES| miRBase ptc-MIR172f: 2e-31 PMRD ptc-miRf10081-akr: 1e-75 microPC miR172: 0.000002 | UniProt no hits RFAM mir-172: 2e-74 |
Identical with: ptc-miRf10081-akr from PMRD (MNEST051903) |
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)"
