Stem-loop ptc-MIR396a

Accession

MI0002325

Description

Populus trichocarpa ptc-MIR396a precursor miRNA

Literature search

7 open access papers mention ptc-MIR396a
(25 sentences)

Sequence

48708788 reads, 792751.0 reads per million, 9 experiments

cuugguauucUUCCACAGCUUUCUUGAACUGcaccuauuugaauauuguuguugauguugccgugcauguacauaugacauuguauuuuuguugcgGUUCAAUAAAGCUGUGGGAAGauacaa
....(((((.((((((((((((.((((((((((.(.....((((((...((((.(((((((...)))...))))..))))..))))))..).)))))))))).)))))))))))).)))))..

Structure

cuug     c            C          c uauuu      ugu    -g    ---   c 
    guauu UUCCACAGCUUU UUGAACUGca c     gaauau   uguu  augu   ugc  
    ||||| |||||||||||| |||||||||| |     ||||||   ||||  ||||   ||| g
    cauaG AGGGUGUCGAAA AACUUGgcgu g     uuuaug   acag  uaca   acg  
--aa     A            U          u ---uu      -uu    ua    ugu   u 

Annotation confidence High

Genome context

CM000342.2: 4636167-4636289 [+]

Clustered miRNAs

1 other miRNA is < 10 kb from ptc-MIR396a

Mature ptc-miR396a-5p

• Accession: MIMAT0002031
• Description: Populus trichocarpa ptc-miR396a-5p mature miRNA
• Sequence: 11 - UUCCACAGCUUUCUUGAACUG - 31
• Evidence: not_experimental

Mature ptc-miR396a-3p

• Accession: MIMAT0055637
• Description: Populus trichocarpa ptc-miR396a-3p mature miRNA
• Sequence: 97 - GUUCAAUAAAGCUGUGGGAAG - 117
• Evidence: experimental ; unknown

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