Stem-loop sequence cin-mir-4061

Accession

MI0015612 (change log)

Description

Ciona intestinalis miR-4061 stem-loop

Stem-loop

   a     uc c     ug      a 
5'  ggcgg  c ucaga  guuucg u
    |||||  | |||||  ||||||  
3'  cugcc  g ggucu  caaagu u
   a     uu c     ca      c 

Deep sequencing

469 reads, 100 reads per million, 2 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (JGI2): scaffold_65: 663351-663400 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from cin-mir-4061

• cin-mir-4039: scaffold_65: 663235-663284 [+]
• cin-mir-4061: scaffold_65: 663351-663400 [+]
• cin-mir-4037: scaffold_65: 663455-663511 [+]
• cin-mir-4052: scaffold_65: 663557-663606 [+]

Database links

• EntrezGene:mir4061
• miRBase Tracker:MI0015612

Mature sequence cin-miR-4061-5p

• Accession: MIMAT0016610
• Sequence: 1 - aggcggucccucagaugguu - 20
• Deep sequencing: 457 reads, 2 experiments
• Evidence: experimental; Illumina [1]

Mature sequence cin-miR-4061-3p

• Accession: MIMAT0016611
• Sequence: 31 - aacacucuggcguuccguca - 50
• Deep sequencing: 12 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).