Stem-loop ath-MIR169k

Accession

MI0000985

Description

Arabidopsis thaliana ath-MIR169k precursor miRNA

Literature search

35 open access papers mention ath-MIR169k
(164 sentences)

Sequence

70353 reads, 1024.0 reads per million, 166 experiments

uuagaaggagaugucaaagaugaauaggagaacaauauuuggUAGCCAAGGAUGACUUGCCUGcuucucugaacaaaauggucgaugucauguuuugaagugacuauaaguuauaccaagaaaugaccauuuuguuuauaaauagacaucAGGCAGUCUCCUUGGCUAUCcuuauauguucuucuuucucaacucagauauuuaccuucaucc
...((((((((((((..((.(((..(((((((((.(((..((((((((((((.((((.(((((..(((.(((((((((((((((........(((((..((((((...))))))..)))))..))))))))))))))).....)))...))))))))))))))))))).))..))))))))))))...))).))..))))))).)))))....

Structure

-uua     -       aa  a   -au         a   uu  -          U    U     -cu   ----c               augucaug     aa      a 
    gaagg agauguc  ag uga   aggagaaca uau  gg UAGCCAAGGA GACU GCCUG   ucu     ugaacaaaauggucg        uuuug  gugacu  
    ||||| |||||||  || |||   ||||||||| |||  || |||||||||| |||| |||||   |||     |||||||||||||||        |||||  |||||| u
    cuucc uuuauag  uc acu   ucuucuugu aua  cC AUCGGUUCCU CUGA CGGAc   aga     auuuguuuuaccagu        agaac  uauuga  
ccua     a       ac  a   cuu         -   uu  U          -    -     uac   uaaau               ------aa     ca      a 

Annotation confidence High

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: 9875525-9875737 [-]

Clustered miRNAs

5 other miRNAs are < 10 kb from ath-MIR169k

Mature ath-miR169k-5p

• Accession: MIMAT0000916
• Description: Arabidopsis thaliana ath-miR169k-5p mature miRNA
• Sequence: 43 - UAGCCAAGGAUGACUUGCCUG - 63
• Evidence: experimental ; cloned [2], 454 [3-4], MPSS [3], Illumina [5]

Mature ath-miR169k-3p

• Accession: MIMAT0053814
• Description: Arabidopsis thaliana ath-miR169k-3p mature miRNA
• Sequence: 151 - AGGCAGUCUCCUUGGCUAUC - 170
• Evidence: experimental ; unknown

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