miRBase entry: aly-MIR169n

Stem-loop aly-MIR169n


Accession
MI0014558
Description
Arabidopsis lyrata aly-MIR169n precursor miRNA
Gene family
MIPF0000012; MIR169_1


Sequence

14 reads, 418 reads per million, 1 experiments
gaaguguauaacgaggaaaagaggucuaacauggcgaaaagagucauguuuagUAGCCAAAGAUGACUUGCCUGaucuuuuucaccuccaugauucaauuugaauuccauggguuuuggauuauuaugcauuuuaaaagcauaauaguucgaaaaucauguugaaucuugcggguuagguuucaGGCAGUCUCUUUGGCUAUCuugacaugcuuuuuucauucauguuauaccuauuuuucuuucugucuuc
((((...(((..((((((((.((((.((((((((.((((((((.((((((.((((((((((((.((((.((((((....(((.((((.((.(((((((.........(((((.((((((((((((((((.........)))))))))))))))).)))))))))))).)).)))).)))..)))))))))))))))))))).)).))))))))))))))..)))))))).)))).))))))))..)))))))

Structure
    ugu   ac        g    c        -c        u      u  -          U    U      ucuu   c    c  u       uuugaauuc     g                auu 
gaag   aua  gaggaaaa aggu uaacaugg  gaaaagag cauguu ag UAGCCAAAGA GACU GCCUGa    uuu accu ca gauucaa         caugg uuuuggauuauuaugc   u
||||   |||  |||||||| |||| ||||||||  |||||||| |||||| || |||||||||| |||| ||||||    ||| |||| || |||||||         ||||| ||||||||||||||||   u
cuuc   ugu  uucuuuuu ucca auuguacu  cuuuuuuc guacag uC AUCGGUUUCU CUGA CGGacu    gga uggg gu cuaaguu         guacu aaagcuugauaauacg   a
    ---   cu        a    u        ua        -      u  U          -    -      --uu   u    c  u       ---------     a                aaa 


Annotation confidence Not enough data
Do you think this miRNA is real?

Genome context
GL348717.1: 3151664-3151915 [-]
Clustered miRNAs
3 other miRNAs are < 10 kb from aly-MIR169n
Name Accession Chromosome Start End Strand Confidence




Database links

Mature aly-miR169n-5p

Accession MIMAT0017511
Description Arabidopsis lyrata aly-miR169n-5p mature miRNA
Sequence 54 - UAGCCAAAGAUGACUUGCCUG - 74
Evidence experimental
Illumina [1], SOLiD [2]

Mature aly-miR169n-3p

Accession MIMAT0017512
Description Arabidopsis lyrata aly-miR169n-3p mature miRNA
Sequence 185 - GGCAGUCUCUUUGGCUAUC - 203
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