Stem-loop aly-MIR408

Accession

MI0014596

Description

Arabidopsis lyrata aly-MIR408 precursor miRNA

Literature search

2 open access papers mention aly-MIR408
(3 sentences)

Sequence

103523 reads, 4506.0 reads per million, 12 experiments

aaagguuagauugguauugcaaugaaagaagugguaaugauagagagagACAGGGAACAAGCAGAGCAUGgauugaguuuacuaaaacauuaaacgacucuguuuugucucuacccaUGCACUGCCUCUUCCCUGGCUcccucuuuucucucucucucucucucucucccucucucuauuucuuucucuccuuucauuucaauggauuuuu
.........((((......))))(((((((((((....((.((((((((((((((((...((((.((((((...(((...((.((((((...........)))))))))))...)))))).))))...))))))).......................)))))))))...))...)))))))))))..(((............))).....

Structure

--aaagguuagauugguauugcaau           uaau  --u         -----------------------       CAA    A      auu   uuu  u      uuaa 
                         gaaagaagugg    ga   agagagagA                       CAGGGAA   GCAG GCAUGg   gag   ac aaaaca    a
                         |||||||||||    ||   |||||||||                       |||||||   |||| ||||||   |||   || ||||||    c
                         cuuucuuuauc    cu   ucucucucu                       GUCCCUU   CGUC CGUacc   cuc   ug uuuugu    g
uuuuuagguaacuuuacuuuccucu           -ucu  ccc         cucucucucucuuuucucccUCG       CUC    A      cau   ---  -      cuca 

Annotation confidence High

Genome context

GL348716.1: 22869851-22870061 [+]

Mature aly-miR408-5p

• Accession: MIMAT0017587
• Description: Arabidopsis lyrata aly-miR408-5p mature miRNA
• Sequence: 50 - ACAGGGAACAAGCAGAGCAUG - 70
• Evidence: experimental ; Illumina [1], SOLiD [2]

Mature aly-miR408-3p

• Accession: MIMAT0017588
• Description: Arabidopsis lyrata aly-miR408-3p mature miRNA
• Sequence: 118 - UGCACUGCCUCUUCCCUGGCU - 138
• 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