ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR166
source: miRBase, original name: ptc-MIR166o (MI0002232)
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 TCGGACCAGGCTTCATTCCTT miRNA* GGAATGAAGTTTGATCCAAGA mismatches: 4 bulges: 0 |
pre-miRNA
AAGGGGTGTTTGGAATGAAGTTTGATCCAAGATCCTTGTCTCTCCCGTTCATTTAGTAATGTTACTGCTAGGTTTCGCTATGTATTGATCAGTGTATACA
CAGCAGCTACGAGCTAGGCCTTGTGTTTCAGATTTTAGCTTCAATATAGAGTGAGCACTAGTGATAGAGTTTGATTCAAGATCCATCTCATGTGTGCTAG
CTAGCTTTTAAATTTTTAATCAGATCCCTACTTCCTGTTAATTCTTAGGTTTTATCTTGCAAGTTATTATATTTAGTAAACATCATGAACTGATCTCGGA
CCAGGCTTCATTCCTTACACCGAA
dot-bracket secondary structure
....(((((..(((((((((((((.(((.(((((((((((.(((..((.((((....))))..)).(((((..((((((.((((((((...(((....))
)..........(((((((..(((.....)))..))))))))))))))).))))))..)))))....)))...))..)))).......(((((..(((.((
.(((..(((((....(((((..((........))..)))))...)))))..))).)).)))..((((((....))))))....)))))...))))).)))
.)))))))))))))..)))))...
SIMILARITIES
MORE
miRNEST target predictions
non-miRNEST targets
HuntMi prediction: not a 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)"
AAGGGGTGTTTGGAATGAAGTTTGATCCAAGATCCTTGTCTCTCCCGTTCATTTAGTAATGTTACTGCTAGGTTTCGCTATGTATTGATCAGTGTATACA
CAGCAGCTACGAGCTAGGCCTTGTGTTTCAGATTTTAGCTTCAATATAGAGTGAGCACTAGTGATAGAGTTTGATTCAAGATCCATCTCATGTGTGCTAG
CTAGCTTTTAAATTTTTAATCAGATCCCTACTTCCTGTTAATTCTTAGGTTTTATCTTGCAAGTTATTATATTTAGTAAACATCATGAACTGATCTCGGA
CCAGGCTTCATTCCTTACACCGAA
dot-bracket secondary structure
....(((((..(((((((((((((.(((.(((((((((((.(((..((.((((....))))..)).(((((..((((((.((((((((...(((....))
)..........(((((((..(((.....)))..))))))))))))))).))))))..)))))....)))...))..)))).......(((((..(((.((
.(((..(((((....(((((..((........))..)))))...)))))..))).)).)))..((((((....))))))....)))))...))))).)))
.)))))))))))))..)))))...
SIMILARITIES| miRBase ptc-MIR166n: 9e-26 PMRD ptc-miR166o: 0 microPC miR166: 0.0000003 | UniProt no hits RFAM mir-166: 1e-179 |
Identical with: ptc-miR166o from PMRD (MNEST051639) |
MOREmiRNEST target predictions
non-miRNEST targets
HuntMi prediction: not a 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)"
