miRBase entry: aly-MIR169l

Stem-loop aly-MIR169l


Accession
MI0014556
Description
Arabidopsis lyrata aly-MIR169l precursor miRNA
Gene family
MIPF0000012; MIR169_1


Sequence

11 reads, 349 reads per million, 1 experiments
guuaagaaauguaugaugaagaugagaggucuaacauggcgaaaagagucauguuuaaUAGCCAAGGAUGACUUGCCUGaucuuuuucaccuccaugauucaauuugaauuucauggguuuuggauuauuaugcaucuaaaagguguaauaauucgaaaaucaaguugaaucuugcggguuagguuucaGGCAGUCUCCUUGGCUAUCuugacauacucuuuucauccauguuauaccuaauuuucuuuuuuuauugaggauauuugaggau
......((((((..((((((((.(((((((.((((((((.(((((((((.(((((..(((((((((((.((((.((((((....(((.((((.((.((((((((((((.((((.........(((((((..(((((((...)))))))))))))))))).)))))))))))).)).)))).)))..)))))))))))))))))))))...))))))))))))))..)))))))).))))....)))..))))))))....))))))......

Structure
guuaag      --au        -u   ----    c        -c         c     -ua           U    U      ucuu   c    c  u            a    auggguuuu       ua       a 
      aaaugu    gaugaaga  gag    aggu uaacaugg  gaaaagagu auguu   aUAGCCAAGGA GACU GCCUGa    uuu accu ca gauucaauuuga uuuc         ggauuau  ugcaucu  
      ||||||    ||||||||  |||    |||| ||||||||  ||||||||| |||||   ||||||||||| |||| ||||||    ||| |||| || |||||||||||| ||||         |||||||  ||||||| a
      uuuaua    uuauuuuu  cuu    ucca auuguacc  cuuuucuca uacag   UAUCGGUUCCU CUGA CGGacu    gga uggg gu cuaaguugaacu aaag         cuuaaua  augugga  
uaggag      ggag        uu   uuaa    u        ua         -     uuC           -    -      --uu   u    c  u            a    ---------       --       a 


Annotation confidence Not enough data
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Genome context
GL348717.1: 3149048-3149319 [-]
Clustered miRNAs
3 other miRNAs are < 10 kb from aly-MIR169l
Name Accession Chromosome Start End Strand Confidence




Database links

Mature aly-miR169l-5p

Accession MIMAT0017507
Description Arabidopsis lyrata aly-miR169l-5p mature miRNA
Sequence 59 - UAGCCAAGGAUGACUUGCCUG - 79
Evidence experimental
Illumina [1], SOLiD [2]

Mature aly-miR169l-3p

Accession MIMAT0017508
Description Arabidopsis lyrata aly-miR169l-3p mature miRNA
Sequence 190 - GGCAGUCUCCUUGGCUAUC - 208
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