Stem-loop sequence osa-MIR159c

Accession

MI0001094 (change log)

Description

Oryza sativa miR159c stem-loop

Gene family

MIPF0000010; MIR159

Literature search

75 open access papers mention osa-MIR159c
(338 sentences)

Stem-loop

      ga   a a                    u   g        ----    a  aug  g  g   au     g u    c  -       u   -a   a 
5' gag  gga g ggagcuccuuucgauccaau cag agaggaag    uggu gg   ca cu ccg  ucaug a accu ug gagugca ggc  gca u
   |||  ||| | |||||||||||||||||||| ||| ||||||||    |||| ||   || || |||  ||||| | |||| || ||||||| |||  |||  
3' cuc  ucu c ccucgagggaaguuagguua guu ucuccuuc    acca cc   gu ga ggc  aguac u uggg ac uucacgu ccg  ugu g
      uc   a a                    -   a        uguu    c  -aa  a  g   cc     g u    u  g       -   ga   c 

Deep sequencing

1800 reads, 1.1e+03 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Comments

This sequence is a predicted paralogue of the previously identified miR159/JAW family [1]. It is predicted to target mRNAs coding for MYB and TCP transcription factors.

Genome context

• Coordinates (MSU7): Chr1: 6556048-6556244 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from osa-MIR159c

• osa-MIR159d: Chr1: 6563756-6563944 [-]
• osa-MIR159c: Chr1: 6556048-6556244 [-]

Database links

• miRBase Tracker:MI0001094

Mature sequence osa-miR159c

• Accession: MIMAT0001024
• Sequence: 167 - auuggauugaagggagcucca - 187
• Deep sequencing: 1755 reads, 2 experiments
• Evidence: by similarity; MI0000544
• Database links:
  • RNAcentral:URS000010CA0A_39947

References

1. PMID:15200956 "Computational identification of plant microRNAs and their targets, including a stress-induced miRNA" Jones-Rhoades MW, Bartel DP Mol Cell. 14:787-799(2004).