miRBase entry: aly-MIR399a

Stem-loop aly-MIR399a


Accession
MI0014588
Description
Arabidopsis lyrata aly-MIR399a precursor miRNA
Gene family
MIPF0000015; MIR399


Sequence

caugugagauggaucaaagguggaaauguauuacaGGGUAAGAUCUCUAUUGGCAGGaaaccauuacuuagaucuuugcaucucuuuaugcauugcuuuuaagugaguucucUGCCAAAGGAGAUUUGCCCGGuaauucuucugcaccaauauauugauaug
(((((..((((.......((((.(...(.(((((.(((((.(((((((.((((((((.(((..(((((((((.(..(((((......)))))..)..)))))))))))).)))))))).)))))))))))).))))).)...).))))....)))).)))))

Structure
     ga    gaucaaa    g aau u     a     A       A        a   ca         -u uu     cu 
caugu  gaug       ggug a   g auuac GGGUA GAUCUCU UUGGCAGG aac  uuacuuaga  c  ugcau  c
|||||  ||||       |||| |   | ||||| ||||| ||||||| |||||||| |||  |||||||||  |  |||||   
guaua  uuau       ccac u   c uaauG CCCGU UUAGAGG AACCGUcu uug  agugaauuu  g  acgua  u
     -g    ---auaa    g cuu u     G     -       A        c   --         uc uu     uu 


Annotation confidence Not enough data
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Genome context
GL348713.1: 12890901-12891062 [+]
Clustered miRNAs
3 other miRNAs are < 10 kb from aly-MIR399a
Name Accession Chromosome Start End Strand Confidence




Database links

Mature aly-miR399a-5p

Accession MIMAT0017571
Description Arabidopsis lyrata aly-miR399a-5p mature miRNA
Sequence 36 - GGGUAAGAUCUCUAUUGGCAGG - 57
Evidence experimental
Illumina [1], SOLiD [2]

Mature aly-miR399a-3p

Accession MIMAT0017572
Description Arabidopsis lyrata aly-miR399a-3p mature miRNA
Sequence 113 - UGCCAAAGGAGAUUUGCCCGG - 133
Evidence experimental
Illumina [1], SOLiD [2]

References

  1. PubMed ID: 20407027
    MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana
    "Fahlgren N, Jogdeo S, Kasschau KD, Sullivan CM, Chapman EJ, Laubinger S, Smith LM, Dasenko M, Givan SA, Weigel D, Carrington JC"
    "Plant Cell (2010) 22:1074-1089

  2. PubMed ID: 20407023
    Arabidopsis lyrata small RNAs: transient MIRNA and small interfering RNA loci within the Arabidopsis genus
    "Ma Z, Coruh C, Axtell MJ"
    "Plant Cell (2010) 22:1090-1103