miRBase entry: aly-MIR842

Stem-loop aly-MIR842


Accession
MI0014615
Description
Arabidopsis lyrata aly-MIR842 precursor miRNA
Gene family
MIPF0001158; MIR842


Sequence

7 reads, 244 reads per million, 1 experiments
auaaacuauugcaaaaagagagaccacaagcgggAUGAUGGAUCCGACCAUGAUGguguugcagaaacuuauguacgagguaguuauccaggggucgaaacaccaUCAUGGUCAGAUCCGUCAUCCcacuuauguuuuuuuaggucaacaaggauau
................((((((((...(((.(((((((((((((.(((((((((((((((...((..(((....((......)).....)))..))..))))))))))))))).))))))))))))).)))..))))))))..(((......)))..

Structure
auaaacuauugcaaaa        cac   c             C               gca  aa   -augu  ga 
                agagagac   aag gggAUGAUGGAUC GACCAUGAUGguguu   ga  cuu     ac  g
                ||||||||   ||| ||||||||||||| |||||||||||||||   ||  |||     ||   
                uuuuuuug   uuc cCCUACUGCCUAG CUGGUACUaccacaa   cu  gga     ug  g
uauaggaacaacugga        -ua   a             A               -ag  gg   ccuau  au 


Annotation confidence Not enough data
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Genome context
GL348714.1: 2587536-2587692 [-]
Clustered miRNAs
1 other miRNA is < 10 kb from aly-MIR842
Name Accession Chromosome Start End Strand Confidence




Database links

Mature aly-miR842-5p

Accession MIMAT0017627
Description Arabidopsis lyrata aly-miR842-5p mature miRNA
Sequence 35 - AUGAUGGAUCCGACCAUGAUG - 55
Evidence experimental
Illumina [1], SOLiD [2]

Mature aly-miR842-3p

Accession MIMAT0017628
Description Arabidopsis lyrata aly-miR842-3p mature miRNA
Sequence 106 - UCAUGGUCAGAUCCGUCAUCC - 126
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