Stem-loop sequence osa-MIR5540

Accession

MI0019061 (change log)

Description

Oryza sativa miR5540 stem-loop

Gene family

MIPF0001604; MIR5160

Literature search

1 open access papers mention osa-MIR5540
(1 sentences)

Stem-loop

   u       u      a                  ucgcacaacc                 u ga      a      a          cauugaaa  a         accgugcacgauaauuaaucacuaauuauuauuagcuaauaguuaauuauguacuugaucacuaauu 
5'  uuugcga aauaua cgucgaucucgcacgauc          guugcgcgaaaaugacg g  ugugac uugcag cgguauugcg        gu cgagaccgc                                                                   a
    ||||||| |||||| ||||||||||||||||||          ||||||||||||||||| |  |||||| |||||| ||||||||||        || |||||||||                                                                    
3'  aaacgcu uuauau gcagcuagagcguguuag          uaacgcgcuuuuauugc u  gcacug agcguc gccauagcgc        ca gcucuggcg                                                                   a
   -       u      g                  ----------                 c ac      c      c          acccgaua  c         cgccagaaugcuuuacuuucucgcuccagaacgacuuugucagacgcugucauaauuggccgaggua 

Deep sequencing

184 reads, 0 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (MSU7): Chr1: 35552728-35553070 [-]
• Overlapping transcripts:

  intergenic

Database links

• miRBase Tracker:MI0019061

Mature sequence osa-miR5540

• Accession: MIMAT0022176
• Sequence: 313 - uugugcgagaucgacgguaua - 333
• Deep sequencing: 155 reads, 2 experiments
• Evidence: experimental; Illumina [1]
• Database links:
  • RNAcentral:URS0000459967_39947

References

1. PMID:21679406 "Deep sequencing on genome-wide scale reveals the unique composition and expression patterns of microRNAs in developing pollen of Oryza sativa" Wei LQ, Yan LF, Wang T Genome Biol. 12:R53(2011).