Stem-loop cin-mir-200

Accession

MI0007175

Description

Ciona intestinalis cin-mir-200 precursor miRNA

Sequence

3762 reads, 1286 reads per million, 2 experiments

uucgugccaaccgaaUCACCAACCACGUAGUAUCGgagcauugugugucUAAUACUGCCUGGUAAUGGUGAuuggguggauacgua
..(((((((.((.((((((((((((.(((((((.(((.(((...)))))).))))))).))))..)))))))).))))).))))..

Structure

uu    -   a  g        --    C       C   g   u 
  cgug cca cc aaUCACCA  ACCA GUAGUAU Gga cau  
  |||| ||| || ||||||||  |||| ||||||| ||| ||| g
  gcau ggu gg uuAGUGGU  UGGU CGUCAUA Ucu gug  
au    a   -  g        AA    C       A   -   u 

Annotation confidence High

Genome context

scaffold_71: 128174-128259 [+]

Clustered miRNAs

3 other miRNAs are < 10 kb from cin-mir-200

Mature cin-miR-200-5p

• Accession: MIMAT0015263
• Description: Ciona intestinalis cin-miR-200-5p mature miRNA
• Sequence: 16 - UCACCAACCACGUAGUAUCG - 35
• Evidence: experimental ; Illumina [3]

Mature cin-miR-200-3p

• Accession: MIMAT0006110
• Description: Ciona intestinalis cin-miR-200-3p mature miRNA
• Sequence: 50 - UAAUACUGCCUGGUAAUGGUGA - 71
• Evidence: experimental ; Northern [1], Illumina [3]

References

1. PubMed ID: 18339653
   Altered miRNA repertoire in the simplified chordate, Oikopleura dioica
   "Fu X, Adamski M, Thompson EM"
   "Mol Biol Evol (2008) 25:1067-1080


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


3. PubMed ID: 18047675
   Computational prediction and experimental validation of Ciona intestinalis microRNA genes
   Norden-Krichmar TM, Holtz J, Pasquinelli AE, Gaasterland T
   BMC Genomics (2007) 8:445