ABOUT THIS RECORDspecies: Populus trichocarpa
miRNA family: MIR160
source: miRBase, original name: ptc-MIR160h (MI0002208)
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 TGCCTGGCTCCCTGCATGCCA miRNA* GCGTGCAACGAGTCATGCATG mismatches: 3 bulges: 0 |
pre-miRNA
GATCCCTGTGTGCCTGGCTCCCTGCATGCCATTTGCATAGCTCATCAGAACGTCGGTGGCCTTGGTGGATGGCGTGCAACGAGTCATGCATGCTGTGA
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)"
[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"
GATCCCTGTGTGCCTGGCTCCCTGCATGCCATTTGCATAGCTCATCAGAACGTCGGTGGCCTTGGTGGATGGCGTGCAACGAGTCATGCATGCTGTGA
dot-bracket secondary structure
..((.(.((((((.((((((..(((((((((((..(...((.((((........))))))....)..)))))))))))..)))))).)))))).).))
SIMILARITIES| miRBase tcc-MIR160b: 0.00000000008 PMRD ptc-miR160h: 8e-51 microPC miR160: 0.000000001 | UniProt no hits RFAM mir-160: 2e-42 |
Identical with: ptc-miR160h from PMRD (MNEST051615) |
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)"
[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"
