Stem-loop ath-MIR399a

Accession

MI0001020

Description

Arabidopsis thaliana ath-MIR399a precursor miRNA

Literature search

40 open access papers mention ath-MIR399a
(206 sentences)

Sequence

19468 reads, 135.0 reads per million, 166 experiments

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 High

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 [+]

Mature ath-miR399a-5p

• Accession: MIMAT0053828
• Description: Arabidopsis thaliana ath-miR399a-5p mature miRNA
• Sequence: 13 - GGGUAAGAUCUCUAUUGGCAGGAA - 36
• Evidence: experimental ; unknown

Mature ath-miR399a-3p

• Accession: MIMAT0000951
• Description: Arabidopsis thaliana ath-miR399a-3p 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