Stem-loop ath-MIR172c

Accession

MI0000991

Description

Arabidopsis thaliana ath-MIR172c precursor miRNA

Literature search

57 open access papers mention ath-MIR172c
(299 sentences)

Sequence

312410 reads, 1942.0 reads per million, 184 experiments

agcuacuguucgcuguuGGAGCAUCAUCAAGAUUCACAaaucaucaaguauucguguaaauaaacccauuuaugauuagauuuuugauguauguaugAGAAUCUUGAUGAUGCUGCAGcugcaaucaguggcu
((((((((...((.((((.(((((((((((((((((((...(((((((.(((..(((((((......)))))))....))).)))))))..)))....)))))))))))))))).)))).))...))))))))

Structure

        uuc  u    G                ----   aau       u   --cg       aa 
agcuacug   gc guuG AGCAUCAUCAAGAUUC    ACA   caucaag auu    uguaaau  a
||||||||   || |||| ||||||||||||||||    |||   ||||||| |||    |||||||   
ucggugac   cg cGAC UCGUAGUAGUUCUAAG    ugu   guaguuu uag    guauuua  c
        uaa  u    G                Agua   -au       u   auua       cc 

Annotation confidence High

Comments

This sequence is a predicted paralogue of the previously identified miR172 family [1], later experimentally verified [2]. It is predicted to target mRNAs coding for APETALA2-like transcription factors.

Genome context

chr3: 3599776-3599908 [-]

Mature ath-miR172c-5p

• Accession: MIMAT0053818
• Description: Arabidopsis thaliana ath-miR172c-5p mature miRNA
• Sequence: 18 - GGAGCAUCAUCAAGAUUCACA - 38
• Evidence: experimental ; unknown

Mature ath-miR172c-3p

• Accession: MIMAT0000922
• Description: Arabidopsis thaliana ath-miR172c-3p mature miRNA
• Sequence: 98 - AGAAUCUUGAUGAUGCUGCAG - 118
• Evidence: experimental ; 5'RACE [2], cloned [2], 454 [3-4], MPSS [3], Illumina [5]

References

1. PubMed ID: 16040653
   Expression of Arabidopsis MIRNA genes
   "Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC"
   "Plant Physiol (2005) 138:2145-2154


2. 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


3. 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


4. 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


5. 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