Stem-loop ptc-MIR172d

Accession

MI0002290

Description

Populus trichocarpa ptc-MIR172d precursor miRNA

Literature search

9 open access papers mention ptc-MIR172d
(47 sentences)

Sequence

2162 reads, 38.0 reads per million, 9 experiments

gcauuggcggauGCGGCAUCAUCAAGAUUCACAagcuuuaaggcuugagugagagggguggcauacggucaccuccuuuagcaagcuuuaaggcuugagugagagggguggcauacggucaccuccuuuaguccaaaggguccuuuuuuaugGGAAUCUUGAUGAUGCUGCAUcggcaaaua
......((.(((((((((((((((((((((.((((((((((((((((...(((.((((((((.....)))))))))))...))))))))))))))))....(((((((((((.....)))))).)))))...((....)).((........))))))))))))))))))))))).)).....

Structure

gcauug  g                     -------------------------------------------------------A                agu   a        a 
      gc gauGCGGCAUCAUCAAGAUUC                                                        CAagcuuuaaggcuug   gag gggguggc u
      || |||||||||||||||||||||                                                        ||||||||||||||||   ||| |||||||| a
      cg cUACGUCGUAGUAGUUCUAAG                                                        guucggaauuucgaac   uuc cuccacug c
-auaaa  g                     Gguauuuuuuccugggaaaccugauuuccuccacuggcauacgguggggagaguga                gau   -        g 

Annotation confidence High

Genome context

CM000337.2: 24216475-24216656 [+]

Mature ptc-miR172d-5p

• Accession: MIMAT0055618
• Description: Populus trichocarpa ptc-miR172d-5p mature miRNA
• Sequence: 13 - GCGGCAUCAUCAAGAUUCACA - 33
• Evidence: experimental ; unknown

Mature ptc-miR172d-3p

• Accession: MIMAT0001996
• Description: Populus trichocarpa ptc-miR172d-3p mature miRNA
• Sequence: 153 - GGAAUCUUGAUGAUGCUGCAU - 173
• Evidence: not_experimental

References

1. Conservation and divergence of microRNA families in plants
   "Dezulian T, Palatnik JF, Huson DH, Weigel D"
   Genome Biol. (2005) 6:P13


2. PubMed ID: 16973872
   The genome of black cottonwood, Populus trichocarpa (Torr. & Gray)
   "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 (2006) 313:1596-1604


3. PubMed ID: 15994906
   Novel and mechanical stress-responsive MicroRNAs in Populus trichocarpa that are absent from Arabidopsis
   "Lu S, Sun YH, Shi R, Clark C, Li L, Chiang VL"
   "Plant Cell (2005) 17:2186-2203