Stem-loop cin-mir-34

Accession

MI0007158

Description

Ciona intestinalis cin-mir-34 precursor miRNA

Gene family

MIPF0000039; mir-34

Literature search

1 open access papers mention cin-mir-34
(2 sentences)

Sequence

1582 reads, 657 reads per million, 2 experiments

uuucacgugauucugAGGCAGUGUAGUUAGCUAGUUGuuuucuugccgagauggacuugcaucccgaacgguuuauuucgaacAACUGCUUUUUGCACUACCACGgaaaucacuugacu
..(((.(((((((((.((.(((((((..(((.(((((((.......(((((((((((............)))))))))))))))))))))..))))))).)).))).)))))).)))..

Structure

uu   c      -   A  C       UU   U       uucuugc           ugcau 
  uca gugauu cug GG AGUGUAG  AGC AGUUGuu       cgagauggacu     c
  ||| |||||| ||| || |||||||  ||| |||||||       |||||||||||      
  agu cacuaa gGC CC UCACGUU  UCG UCAAcaa       gcuuuauuugg     c
uc   u      a   A  A       UU   -       -------           caagc 

Annotation confidence Not enough data

Genome context

10q: 2152513-2152631 [-]

Clustered miRNAs

5 other miRNAs are < 10 kb from cin-mir-34

Mature cin-miR-34-5p

• Accession: MIMAT0006094
• Description: Ciona intestinalis cin-miR-34-5p mature miRNA
• Sequence: 16 - AGGCAGUGUAGUUAGCUAGUUG - 37
• Evidence: experimental ; Northern [1], Illumina [3]

Mature cin-miR-34-3p

• Accession: MIMAT0015252
• Description: Ciona intestinalis cin-miR-34-3p mature miRNA
• Sequence: 84 - AACUGCUUUUUGCACUACCACG - 105
• Evidence: experimental ; 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