Stem-loop aly-MIR399e

Accession

MI0014592

Description

Arabidopsis lyrata aly-MIR399e precursor miRNA

Gene family

MIPF0000015; MIR399

Sequence

agugagagaggaaaacagagauuauguuuugguagaaagcauuacaGGGCGAAUCCUCUAUUGGCAGGggaaguugaugaguguugaucacucuuauauuuucucaucauuuuccucUGCCAAAGGAGAUUUGCCUCGcaaugcuucccuaccguuauggcguuauucauuucuccaauguccaaucuacu
(((.(((..(((.....((((..(((((.((((((.(((((((.(.(((((((((.(((.(((((((((((((.(((((((.....................))))))).))))))))))))).)))))))))))).).)))))))..))))))....)))))........)))).....)))..))))))

Structure

   g   ga   aaaca    ------uu     ---u      -a       a a         C   A             u       uguugauca 
agu aga  gga     gaga        auguu    ugguag  aagcauu c GGGCGAAUC UCU UUGGCAGGggaag ugaugag         c
||| |||  |||     ||||        |||||    ||||||  ||||||| | ||||||||| ||| ||||||||||||| |||||||         u
uca ucu  ccu     cucu        ugcgg    gccauc  uucguaa G UCCGUUUAG AGG AACCGUcuccuuu acuacuc         c
   -   aa   guaac    uuacuuau     uauu      cc       c C         -   A             u       uuuuauauu 

Annotation confidence Not enough data

Genome context

GL348716.1: 16218063-16218253 [+]

Clustered miRNAs

2 other miRNAs are < 10 kb from aly-MIR399e

Mature aly-miR399e-5p

• Accession: MIMAT0017579
• Description: Arabidopsis lyrata aly-miR399e-5p mature miRNA
• Sequence: 47 - GGGCGAAUCCUCUAUUGGCAGG - 68
• Evidence: experimental ; Illumina [1], SOLiD [2]

Mature aly-miR399e-3p

• Accession: MIMAT0017580
• Description: Arabidopsis lyrata aly-miR399e-3p mature miRNA
• Sequence: 118 - UGCCAAAGGAGAUUUGCCUCG - 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