Stem-loop ath-MIR400

Accession

MI0001069

Description

Arabidopsis thaliana ath-MIR400 precursor miRNA MIR400

Gene
family

RF03916; MIR400

Literature search

10 open access papers mention ath-MIR400
(23 sentences)

Sequence

125950 reads, 877.0 reads per million, 183 experiments

ugaggauuguuUAUGAGAGUAUUAUAAGUCACUacauuugguaagcaaaguguuguuucucaaacgaAGUGACUUAUGAUAAUCUCAUGaauggauuuugca
..((((((.(((((((((.((((((((((((((.(.(((((.((((((....)))))).))))).).)))))))))))))).)))))))))..))))))...

Structure

-ug      -g         G              a a     u      a 
   aggauu  uuUAUGAGA UAUUAUAAGUCACU c uuugg aagcaa g
   ||||||  ||||||||| |||||||||||||| | ||||| ||||||  
   uuuuag  aaGUACUCU AUAGUAUUCAGUGA g aaacu uuuguu u
acg      gu         A              a c     c      g 

Annotation confidence High

Genome context

chr1: 11785936-11786037 [+]

Clustered miRNAs

1 other miRNA is < 10 kb from ath-MIR400

Mature ath-miR400-5p

• Accession: MIMAT0001001
• Description: Arabidopsis thaliana ath-miR400-5p mature miRNA
• Sequence: 12 - UAUGAGAGUAUUAUAAGUCACU - 33
• Evidence: experimental ; cloned [1], Northern [1], 454 [2-3], MPSS [2], Illumina [4]

Mature ath-miR400-3p

• Accession: MIMAT0053833
• Description: Arabidopsis thaliana ath-miR400-3p mature miRNA
• Sequence: 68 - AGUGACUUAUGAUAAUCUCAUG - 89
• Evidence: experimental ; unknown

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: 15258262
   Novel and stress-regulated microRNAs and other small RNAs from Arabidopsis
   "Sunkar R, Zhu JK"
   "Plant Cell (2004) 16:2001-2019