Stem-loop sequence cin-mir-4060

Accession

MI0015611 (change log)

Description

Ciona intestinalis miR-4060 stem-loop

Stem-loop

           c uu    u     ucga 
5' auuucacu u  caac guugg    a
   |||||||| |  |||| |||||    a
3' ugaaguga g  guug cgacc    u
           c uu    c     uaua 

Deep sequencing

267 reads, 50 reads per million, 2 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (JGI2): scaffold_44: 426196-426250 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from cin-mir-4060

• cin-mir-4078: scaffold_44: 426304-426354 [-]
• cin-mir-4060: scaffold_44: 426196-426250 [-]

Database links

• EntrezGene:mir4060
• miRBase Tracker:MI0015611

Mature sequence cin-miR-4060-5p

• Accession: MIMAT0016608
• Sequence: 1 - auuucacucuuucaacuguu - 20
• Deep sequencing: 167 reads, 2 experiments
• Evidence: experimental; Illumina [1]

Mature sequence cin-miR-4060-3p

• Accession: MIMAT0016609
• Sequence: 36 - agccguuguugcagugaagu - 55
• Deep sequencing: 100 reads, 2 experiments
• Evidence: experimental; Illumina [1]

References

1. PMID:20370911 "miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data" Hendrix D, Levine M, Shi W Genome Biol. 11:R39(2010).