Stem-loop sequence osa-MIR5082

Accession

MI0017973 (change log)

Description

Oryza sativa miR5082 stem-loop

Literature search

3 open access papers mention osa-MIR5082
(6 sentences)

Stem-loop

   ggcgggcgggugagcgcggcggccaugguugcggcggugguggcgcgcggcggcggcggcggcuagggcucaggcggcuuggugcgggagagaggcggcggcgaaggggagagaucgcuucgagagagugauuuuauagcgaggggauuaggguuuagcucuagugggccaugggggauaguuaguggaccacuaugggccgggcuagaauuaguugggccuucgcgagcccaacuugugggcuaguuuuucgcuuguaaaaggccauggggggaggaggcggcgagcuaggguuucgacccucacgaacacuacuugaucuuauccga   ug   u        -       cg      g        -----      -uu         --a   a  u  uc 
5'                                                                                                                                                                                                                                                                                                                                          gcu  ccg ccggcggc gccgcgg  gccgga ucgccucu     ccgaca   cgcgccgcc   ccg cg cc  g
                                                                                                                                                                                                                                                                                                                                            |||  ||| |||||||| |||||||  |||||| ||||||||     ||||||   |||||||||   ||| || ||   
3'                                                                                                                                                                                                                                                                                                                                          cga  ggc ggccgcug cggugcc  uggcuu ggcggaga     gguugu   gcgcggugg   ggc gu gg  u
   ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------caacaaacccacuugggcgcgccgguaguagcgugcgcgaggcuggcgcccgucagcaguag   gu   -        a       cu      g        aaggg      uuc         aag   g  u  ca 

Deep sequencing

18 reads, 0 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Comments

This is a predicted homolog of a miRNA identified by Illumina deep sequencing in barley (Hordeum vulgare) [1].

Genome context

• Coordinates (MSU7): Chr11: 1286146-1286686 [+]
• Overlapping transcripts:

  intergenic

Database links

• miRBase Tracker:MI0017973

Mature sequence osa-miR5082

• Accession: MIMAT0020582
• Sequence: 508 - ugcgaugauggccgcgcggguuca - 531
• Deep sequencing: 4 reads, 1 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS00003437A8_39947

References

1. PMID:21352554 "Discovery of barley miRNAs through deep sequencing of short reads" Schreiber AW, Shi BJ, Huang CY, Langridge P, Baumann U BMC Genomics. 12:129(2011).