miRBase entry: ptc-MIR396a

Stem-loop ptc-MIR396a


Accession
MI0002325
Description
Populus trichocarpa ptc-MIR396a precursor miRNA
Gene family
MIPF0000047; MIR396

Literature search
6 open access papers mention ptc-MIR396a
(16 sentences)

Sequence

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 Not enough data
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Genome context
CM000342.2: 4636167-4636289 [+]
Clustered miRNAs
1 other miRNA is < 10 kb from ptc-MIR396a
Name Accession Chromosome Start End Strand Confidence




Database links

Mature ptc-miR396a

Accession MIMAT0002031
Description Populus trichocarpa ptc-miR396a mature miRNA
Sequence 11 - UUCCACAGCUUUCUUGAACUG - 31
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