miRNEST 2.0: an integrative microRNA resource miRNEST 2.0, an integrative microRNA resource :: Browse

Species belonging to selected taxon:

Euphorbia esula, Hevea brasiliensis, Jatropha curcas, Linum usitatissimum, Manihot esculenta, Populus deltoides, Populus euphratica, Populus nigra, Populus tremula, Populus tremula x Populus alba, Populus tremula x Populus tremuloides, Populus tremuloides, Populus trichocarpa x Populus nigra, Populus x canadensis, Bruguiera gymnorhiza, Populus trichocarpa, Ricinus communis, Populus trichocarpa x Populus deltoides



ABOUT THIS RECORD

ID: MNEST051615
species: Populus trichocarpa
miRNA family: MIR160
source: PMRD, original name: ptc-miR160h

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

View larger
pre-miRNA
GATCCCTGTGTGCCTGGCTCCCTGCATGCCATTTGCATAGCTCATCAGAACGTCGGTGGCCTTGGTGGATGGCGTGCAACGAGTCATGCATGCTGTGA

dot-bracket secondary structure
..((.(.((((((.((((((..(((((((((((..(...((.((((........))))))....)..)))))))))))..)))))).)))))).).))


SIMILARITIES
miRBase ptc-MIR160h: 8e-51

PMRD vvi-miR160f: 0.000000001

microPC miR160: 0.000000001
UniProt no hits

RFAM mir-160: 2e-42

Identical with: ptc-MIR160h from miRBase (MNEST041312)

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"




Liczniki na strone;