Stem-loop sequence dre-mir-200c

AccessionMI0002039
DescriptionDanio rerio miR-200c stem-loop
Gene family MIPF0000019; mir-8
Community annotation

This text is a summary paragraph taken from the Wikipedia entry entitled mir-8/mir-141/mir-200_microRNA_precursor_family. miRBase and Rfam are facilitating community annotation of microRNA families and entries in Wikipedia. Read more ...

The miR-8 microRNA precursor (homologous to miR-141, miR-200, miR-236), is a short non-coding RNA gene involved in gene regulation. miR-8 in Drosophila melanogaster is expressed from the 3' arm of related precursor hairpins (represented here), along with miR-200, miR-236, miR-429 and human and mouse homolog miR-141. Members of this precursor family have now been predicted or experimentally confirmed in a wide range of species. The bounds of the precursors are predicted based on conservation and base pairing and are not generally known. The miR-200 family is highly conserved in bilaterian animals, with miR-8 as the sole homolog in Drosophila. This species has accordingly been used heavily in work looking to uncover the biological function of the miR-200 family. miR-8 has been observed at all developmental stages of the embryo, with a complete absence from cultured S2 cells of D. melanogaster. Its expression has been seen to be strongly upregulated in larvae and this expression then sustained through to adulthood.

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Stem-loop
         -  ugg  c    -    a       u     u uua 
5' uggaug cc   cu cauc uuac aggcagu uugga g   u
   |||||| ||   || |||| |||| ||||||| ||||| |    
3' aucuac gg   ga guag aaug uccguca aaucu u   a
         u  -ua  c    u    g       u     c ucu 
Get sequence
Deep sequencing
5349 reads, 1.84e+03 reads per million, 4 experiments
Confidence Annotation confidence: high
Feedback: Do you believe this miRNA is real?
Genome context
Coordinates (Zv9) Overlapping transcripts
6: 40587068-40587152 [-]
sense
OTTDART00000055115 ; ppil1-001; intron 1
OTTDART00000055116 ; ppil1-002; intron 1
ENSDART00000154359 ; ppil1-001; intron 1
ENSDART00000153573 ; ppil1-002; intron 1
Clustered miRNAs
< 10kb from dre-mir-200c
dre-mir-200c6: 40587068-40587152 [-]
dre-mir-1416: 40586867-40586949 [-]
dre-mir-429b6: 40583993-40584102 [-]
Database links

Mature sequence dre-miR-200c-5p

Accession MIMAT0031986
Sequence

15 - 

caucuuacaaggcaguuuugga

 - 36

Get sequence
Deep sequencing89 reads, 4 experiments
Evidence not experimental

Mature sequence dre-miR-200c-3p

Accession MIMAT0001863
Previous IDsdre-miR-200c
Sequence

51 - 

uaauacugccugguaaugaugc

 - 72

Get sequence
Deep sequencing4582 reads, 4 experiments
Evidence experimental; cloned [1]

References

1
PMID:15937218 "The developmental miRNA profiles of zebrafish as determined by small RNA cloning" Chen PY, Manninga H, Slanchev K, Chien M, Russo JJ, Ju J, Sheridan R, John B, Marks DS, Gaidatzis D, Sander C, Zavolan M, Tuschl T Genes Dev. 19:1288-1293(2005).