Stem-loop aly-MIR169j

Accession

MI0014554

Description

Arabidopsis lyrata aly-MIR169j precursor miRNA

Gene family

MIPF0000012; MIR169_1

Sequence

9 reads, 314 reads per million, 1 experiments

gaaugaggcaaaacauauugaguaauggaguguauaaugaggaagagaggucuaacauggcgaaaagagucauguuuaaUAGCCAAGGAUGACUUGCCUGaucuuuuucaccuccaugauucaauuugaaguucaugcguuuuggauuauuaugcaucuaaaagguauaauaauucgaaaaucauguugaaucaugcggguuagguuucaGGCAGUCUCCUUGGCUAUCuugacaugcuuuuuucauccauguuauaccuguuuuucuuucugucucuaaagucacuauuaagucucuuc
(((.(((((.....(((.(((.(..(((((...(((..((((((((.((((.((((((((.((((((((.((((((..(((((((((((.((((.((((((....(((.((((.((((((((((.........((((..((((((((((((((((.........))))))))))))))))..)))))))))))))).)))).)))..)))))))))))))))))))))...))))))))))))))..)))))))).)))).))))))))..)))))))).).))).)))...))))))))

Structure

   u     aaaac   u   g aa     ugu   au        g    c        -c        u      -ua           U    U      ucuu   c    c          uuugaaguu    cg                auc 
gaa gaggc     aua uga u  uggag   aua  gaggaaga aggu uaacaugg  gaaaagag cauguu   aUAGCCAAGGA GACU GCCUGa    uuu accu caugauucaa         caug  uuuuggauuauuaugc   u
||| |||||     ||| ||| |  |||||   |||  |||||||| |||| ||||||||  |||||||| ||||||   ||||||||||| |||| ||||||    ||| |||| ||||||||||         ||||  ||||||||||||||||   a
cuu cucug     uau acu a  aucuc   ugu  uucuuuuu ucca auuguacc  cuuuuuuc guacag   UAUCGGUUCCU CUGA CGGacu    gga uggg guacuaaguu         guac  aaagcuuaauaauaug   a
   -     --aau   c   g -a     ---   cu        g    u        ua        -      uuC           -    -      --uu   u    c          ---------    ua                gaa 

Annotation confidence Not enough data

Genome context

GL348717.1: 3130897-3131196 [-]

Clustered miRNAs

1 other miRNA is < 10 kb from aly-MIR169j

Mature aly-miR169j-5p

• Accession: MIMAT0017503
• Description: Arabidopsis lyrata aly-miR169j-5p mature miRNA
• Sequence: 80 - UAGCCAAGGAUGACUUGCCUG - 100
• Evidence: experimental ; Illumina [1], SOLiD [2]

Mature aly-miR169j-3p

• Accession: MIMAT0017504
• Description: Arabidopsis lyrata aly-miR169j-3p mature miRNA
• Sequence: 211 - GGCAGUCUCCUUGGCUAUC - 229
• 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