Stem-loop sequence ath-MIR166a

AccessionMI0000201
DescriptionArabidopsis thaliana miR166a stem-loop
Gene family MIPF0000004; MIR166
Community annotation

This text is a summary paragraph taken from the Wikipedia entry entitled mir-166_microRNA_precursor. miRBase and Rfam are facilitating community annotation of microRNA families and entries in Wikipedia. Read more ...

The plant mir-166 microRNA precursor is a small non-coding RNA gene. This microRNA (miRNA) has now been predicted or experimentally confirmed in a wide range of plant species. microRNAs are transcribed as ~70 nucleotide precursors and subsequently processed by the Dicer enzyme to give a ~22 nucleotide product. In this case the mature sequence comes from the 3' arm of the precursor, and both Arabidopsis thaliana and rice genomes contain a number of related miRNA precursors which give rise to almost identical mature sequences. The mature products are thought to have regulatory roles through complementarity to messenger RNA.

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Stem-loop
   -a     uuucu uu   a     c  uu      cu       u    cuc      u   uguuggaucucuuucgaucuaacaa 
5'   ggggc     c  uug gggga ug  gucugg  cgaggac cugg   gcucua uca                         u
     |||||     |  ||| ||||| ||  ||||||  ||||||| ||||   |||||| |||                          
3'   ccucg     g  aac ccccu ac  cggacc  gcuucug gauu   ugggau agu                         c
   uc     ---uu uu   c     u  uu      ag       c    --u      u   uuagacuuuagacuuccaaguuaag 
Get sequence
Deep sequencing
12541 reads, 2.52e+04 reads per million, 8 experiments
Confidence Annotation confidence: high
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Comments

MIR166a, like miR165, is thought to target mRNAs coding for HD-Zip transcription factors including Phabulosa (PHB) and Phavoluta (PHV) that regulate axillary meristem initiation and leaf development [2].

Genome context
Coordinates (TAIR10) Overlapping transcripts
chr2: 19176108-19176277 [+]
intergenic
Database links

Mature sequence ath-miR166a-5p

Accession MIMAT0031880
Sequence

21 - 

ggacuguugucuggcucgagg

 - 41

Get sequence
Deep sequencing479 reads, 6 experiments
Evidence experimental; Illumina [7]

Mature sequence ath-miR166a-3p

Accession MIMAT0000189
Previous IDsath-miR166a
Sequence

134 - 

ucggaccaggcuucauucccc

 - 154

Get sequence
Deep sequencing9528 reads, 8 experiments
Evidence experimental; cloned [1,3], Northern [1], 5'RACE [3], 454 [4-5], MPSS [4], Illumina [6]

References

1
PMID:12101121 "MicroRNAs in plants" Reinhart BJ, Weinstein EG, Rhoades MW, Bartel B, Bartel DP Genes Dev. 16:1616-1626(2002).
2
PMID:12202040 "Prediction of plant microRNA targets" Rhoades MW, Reinhart BJ, Lim LP, Burge CB, Bartel B, Bartel DP Cell. 110:513-520(2002).
3
PMID:16040653 "Expression of Arabidopsis MIRNA genes" Xie Z, Allen E, Fahlgren N, Calamar A, Givan SA, Carrington JC Plant Physiol. 138:2145-2154(2005).
4
PMID: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. 16:1276-1288(2006).
5
PMID:17182867 "A diverse and evolutionarily fluid set of microRNAs in Arabidopsis thaliana" Rajagopalan R, Vaucheret H, Trejo J, Bartel DP Genes Dev. 20:3407-3425(2006).
6
PMID: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. 61:165-177(2010).
7
PMID:24119003 "Integrated RNA-seq and sRNA-seq analysis identifies novel nitrate-responsive genes in Arabidopsis thaliana roots" Vidal EA, Moyano TC, Krouk G, Katari MS, Tanurdzic M, McCombie WR, Coruzzi GM, Gutierrez RA BMC Genomics. 14:701(2013).