Stem-loop sequence aly-MIR156a

AccessionMI0014502
DescriptionArabidopsis lyrata miR156a stem-loop
Gene family MIPF0000008; MIR156
Community annotation

This text is a summary paragraph taken from the Wikipedia entry entitled mir-156_microRNA_precursor. miRBase and Rfam are facilitating community annotation of microRNA families and entries in Wikipedia. Read more ...

MicroRNA (miRNA) precursor mir-156 is a family of plant non-coding RNA. This microRNA has now been predicted or experimentally confirmed in a range of plant species (MIPF0000008). Animal miRNAs are transcribed as ~70 nucleotide precursors and subsequently processed by the Dicer enzyme to give a ~22 nucleotide product. In plants the precursor sequences may be longer, and the carpel factory (caf) enzyme appears to be involved in processing. In this case the mature sequence comes from the 5' 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 extents of the hairpin precursors are not generally known and are estimated based on hairpin prediction. The products are thought to have regulatory roles through complementarity to mRNA.

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Stem-loop
      uu     u  gug      -   -     ------     aac   -aa   a         -   -         a   ---      uu    ua 
5' ggg  gguug ga   aaagag uug ggaca      agaga   gca   gaa cugacagaa gag agugagcac caa   aggcaa  ugca  u
   |||  ||||| ||   |||||| ||| |||||      |||||   |||   ||| ||||||||| ||| ||||||||| |||   ||||||  ||||   
3' cuc  cuaac cu   uuucuc agc ccugu      ucucu   cgu   cuu gacugucuu cuc ucacucgug guu   uucguu  acgu  c
      -u     u  --g      u   u     ccgguu     agu   ggc   a         u   g         c   cuc      -u    ua 
Get sequence
Deep sequencing
323 reads, 1.34e+04 reads per million, 1 experiments
Confidence Annotation confidence: high
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Genome context
Coordinates (v1.0) Overlapping transcripts
GL348716.1: 3693766-3693949 [-]
intergenic
Database links

Mature sequence aly-miR156a-5p

Accession MIMAT0017397
Previous IDsaly-miR156a
Sequence

49 - 

ugacagaagagagugagcac

 - 68

Get sequence
Deep sequencing134 reads, 1 experiments
Evidence experimental; Illumina [1], SOLiD [2]

Mature sequence aly-miR156a-3p

Accession MIMAT0017398
Previous IDsaly-miR156a*
Sequence

111 - 

gcucacugcucuuucugucaga

 - 132

Get sequence
Deep sequencing26 reads, 1 experiments
Evidence experimental; Illumina [1], SOLiD [2]

References

1
PMID:20407027 "MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana" Fahlgren N, Jogdeo S, Kasschau KD, Sullivan CM, Chapman EJ, Laubinger S, Smith LM, Dasenko M, Givan SA, Weigel D, Carrington JC Plant Cell. 22:1074-1089(2010).
2