miRBase entry: ath-MIR169i

Stem-loop ath-MIR169i


Accession
MI0000983
Description
Arabidopsis thaliana ath-MIR169i precursor miRNA
Gene family
MIPF0000012; MIR169_1

Literature search
34 open access papers mention ath-MIR169i
(161 sentences)

Sequence

gaaggagaugucaaagaugaauagaagaaucauauuuggUAGCCAAGGAUGACUUGCCUGacucuuuguguaaaauguuuagugucuuguuugaagucacuauaaguuguaucaagcaaugaccauuuugcuuauaaaaaagauaucaggcagucuccuuggcuauccuuauauguucuucucuuucaucucagacauucaccuuc
(((((.((((((..(((((((.(((((((.(((((..((((((((((((.((((.((((((.(((((..((((((((......(((((((((((....(((...)))....)))))))).))))))))))).......)))))..)))))))))))))))))))).))..))))))))))))..)))))))..))))))..)))))

Structure
     -a      aa       -u       u     uu  -          U    U      -c     -----gu        uuuagu   -        aguc   a 
gaagg  gauguc  agaugaa  agaagaa cauau  gg UAGCCAAGGA GACU GCCUGa  ucuuu       guaaaaug      guc uuguuuga    acu  
|||||  ||||||  |||||||  ||||||| |||||  || |||||||||| |||| ||||||  |||||       ||||||||      ||| ||||||||    ||| u
cuucc  uuacag  ucuacuu  ucuucuu guaua  cc aucgguuccu cuga cggacu  agaaa       cguuuuac      cag aacgaacu    uga  
     ac      ac       uc       -     uu  u          -    -      au     aaauauu        ------   u        augu   a 


Annotation confidence Not enough data
Do you think this miRNA is real?
Comments
This sequence is a predicted paralogue of the previously identified miR169 family [1], later experimentally verified [2]. It is predicted to target mRNAs coding for the CCAAT Binding Factor (CBF) and HAP2-like transcription factors.

Genome context
chr3: 9871960-9872165 [-]
Clustered miRNAs
5 other miRNAs are < 10 kb from ath-MIR169i
Name Accession Chromosome Start End Strand Confidence




Database links

Mature ath-miR169i

Accession MIMAT0000914
Description Arabidopsis thaliana ath-miR169i mature miRNA
Sequence 40 - UAGCCAAGGAUGACUUGCCUG - 60
Evidence experimental
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