miRBase entry: osa-MIR396c

Stem-loop osa-MIR396c


Accession
MI0001048
Description
Oryza sativa osa-MIR396c precursor miRNA
Gene family
MIPF0000047; MIR396

Literature search
57 open access papers mention osa-MIR396c
(161 sentences)

Sequence

388 reads, 280 reads per million, 2 experiments
ugccaugccuUUCCACAGCUUUCUUGAACUUcucuugugccucacucacuuucauuacuggagagauaugcaucaucaguggaagcuuauagggagaggagugcaagaagagGGUCAAGAAAGCUGUGGGAAGaaauggca
((((((..(((((((((((((((((((.((((((((((.((((.(((.(((((...(((((.((........)).))))))))))......))).))))...))))).))))).)))))))))))))))))))..))))))

Structure
      gc                   A     -     --g    a   -----a     auu     a  gau 
ugccau  cuUUCCACAGCUUUCUUGA CUUcu cuugu   ccuc cuc      cuuuc   acugg ga   a
||||||  ||||||||||||||||||| ||||| |||||   |||| |||      |||||   ||||| ||    
acggua  GAAGGGUGUCGAAAGAACU Ggaga gaacg   ggag ggg      gaagg   ugacu cu   u
      aa                   G     a     uga    a   auauuc     ---     a  acg 


Annotation confidence High
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Comments
This sequence belongs to the miR396 family of miRNAs, which are predicted to target mRNAs coding for Growth Regulating Factor (GRF) transcription factors, rhodenase-like proteins, and kinesin-like protein B [1].

Genome context
Chr2: 34287873-34288013 [-]
Clustered miRNAs
1 other miRNA is < 10 kb from osa-MIR396c
Name Accession Chromosome Start End Strand Confidence




Database links

Mature osa-miR396c-5p

Accession MIMAT0000979
Description Oryza sativa osa-miR396c-5p mature miRNA
Sequence 11 - UUCCACAGCUUUCUUGAACUU - 31
Evidence not_experimental
Database links

Mature osa-miR396c-3p

Accession MIMAT0022865
Description Oryza sativa osa-miR396c-3p mature miRNA
Sequence 113 - GGUCAAGAAAGCUGUGGGAAG - 133
Evidence experimental
Illumina [2]
Database links

References

  1. 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

  2. PubMed ID: 21901091
    Viral infection induces expression of novel phased microRNAs from conserved cellular microRNA precursors
    Du P, Wu J, Zhang J, Zhao S, Zheng H, Gao G, Wei L, Li Y
    PLoS Pathog (2011) 7:e1002176