miRBase entry: ath-MIR399a

Stem-loop ath-MIR399a


Accession
MI0001020
Description
Arabidopsis thaliana ath-MIR399a precursor miRNA
Gene family
MIPF0000015; MIR399

Literature search
36 open access papers mention ath-MIR399a
(197 sentences)

Sequence

aaaugcauuacaggguaagaucucuauuggcaggaaaccauuacuuagaucuuugcaucucuuuaugcauugcuuuuaauuagugaguuaucUGCCAAAGGAGAUUUGCCCUGuaauucuucu
......(((((((((((.(((((((.((((((((.((((((((.(((((.(..(((((......)))))..)..))))).))))).))).)))))))).))))))))))))))))))......

Structure
aaaugc           a       a        a   -     c     -u uu     cu 
      auuacagggua gaucucu uuggcagg aac cauua uuaga  c  ugcau  c
      ||||||||||| ||||||| |||||||| ||| ||||| |||||  |  |||||   
      uaauGUCCCGU UUAGAGG AACCGUcu uug gugau aauuu  g  acgua  u
ucuucu           -       A        a   a     u     uc uu     uu 


Annotation confidence Not enough data
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Comments
This sequence belongs to the miR399 family of miRNAs, which are predicted to target mRNAs coding for a phosphatase transporter [1].

Genome context
chr1: 10227073-10227195 [+]

Database links

Mature ath-miR399a

Accession MIMAT0000951
Description Arabidopsis thaliana ath-miR399a mature miRNA
Sequence 93 - UGCCAAAGGAGAUUUGCCCUG - 113
Evidence experimental
PCR [1], 454 [2-3], MPSS [2], Illumina [4]

References

  1. PubMed ID: 16954541
    MicroRNAs and other small RNAs enriched in the Arabidopsis RNA-dependent RNA polymerase-2 mutant
    "Lu C, Kulkarni K, Souret FF, MuthuValliappan R, Tej SS, Poethig RS, Henderson IR, Jacobsen SE, Wang W, Green PJ, Meyers BC"
    "Genome Res (2006) 16:1276-1288

  2. PubMed ID: 17182867
    A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana
    "Rajagopalan R, Vaucheret H, Trejo J, Bartel DP"
    "Genes Dev (2006) 20:3407-3425

  3. PubMed ID: 19815687
    Hypoxia-responsive microRNAs and trans-acting small interfering RNAs in Arabidopsis
    "Moldovan D, Spriggs A, Yang J, Pogson BJ, Dennis ES, Wilson IW"
    "J Exp Bot (2010) 61:165-177

  4. PubMed ID: 15200956
    Computational identification of plant microRNAs and their targets, including a stress-induced miRNA
    "Jones-Rhoades MW, Bartel DP"
    "Mol Cell (2004) 14:787-799