Stem-loop ptc-MIR396e

Accession

MI0002329

Description

Populus trichocarpa ptc-MIR396e precursor miRNA

Literature search

7 open access papers mention ptc-MIR396e
(24 sentences)

Sequence

22432145 reads, 359403.0 reads per million, 9 experiments

ggucaugcuuUUCCACAGCUUUCUUGAACUucuuugccuugcuuaaucuguguauauauagaucacuacauguacagcuccuauauauauaaauauauguauguauagcgccauggaaGCUCAAGAAAGCUGUGGGAGAacaugg
...((((.(((((((((((((((((((.(((((.((..............(((((((.(((....))).)))))))((..(((((((((((......))))))))))).)))).))))).))))))))))))))))))).)))).

Structure

ggu    c                   A     u  ccuugcuuaaucuguguauauauagaucacuacauguaca  uc           aa 
   caug uuUUCCACAGCUUUCUUGA CUucu ug                                        gc  cuauauauaua  u
   |||| ||||||||||||||||||| ||||| ||                                        ||  |||||||||||   
   guac AGAGGGUGUCGAAAGAACU Gaagg ac                                        cg  gauauguaugu  a
--g    a                   C     u  ----------------------------------------  -c           au 

Annotation confidence High

Genome context

Unknown

Mature ptc-miR396e-5p

• Accession: MIMAT0002035
• Description: Populus trichocarpa ptc-miR396e-5p mature miRNA
• Sequence: 11 - UUCCACAGCUUUCUUGAACU - 30
• Evidence: experimental ; miRNAseq [4]

Mature ptc-miR396e-3p

• Accession: MIMAT0022910
• Description: Populus trichocarpa ptc-miR396e-3p mature miRNA
• Sequence: 119 - GCUCAAGAAAGCUGUGGGAGA - 139
• Evidence: experimental ; miRNAseq [4]

References

1. PubMed ID: 15916721
   Identification and characterization of new plant microRNAs using EST analysis
   "Zhang BH, Pan XP, Wang QL, Cobb GP, Anderson TA"
   "Cell Res (2005) 15:336-360


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


3. 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


4. PubMed ID: 22442676
   Deep annotation of Populus trichocarpa microRNAs from diverse tissue sets
   Puzey JR, Karger A, Axtell M, Kramer EM
   PLoS One (2012) 7:e33034