Stem-loop sequence cel-mir-40

AccessionMI0000011 (change log)
DescriptionCaenorhabditis elegans miR-40 stem-loop
Gene family MIPF0000096; mir-36
Literature search

1 open access papers mention cel-mir-40
(1 sentences)

Stem-loop
   u     --        c   g          a  a     a   au 
5'  ccugu  ccgcaccu agu gauguaugcc ug ugaua gau  c
    |||||  |||||||| ||| |||||||||| || ||||| |||  a
3'  ggaca  ggcgugga ucg cuacaugugg gc acuau cua  g
   u     ug        a   a          -  c     c   aa 
Get sequence
Deep sequencing
2237734 reads, 1.36e+04 reads per million, 17 experiments
Confidence Annotation confidence: high
Feedback: Do you believe this miRNA is real?
Genome context
Coordinates (WBcel235; GCA_000002985.3) Overlapping transcripts
chrII: 11538184-11538275 [+]
antisense
Y62F5A.9 ; Y62F5A.9; intron 2
Clustered miRNAs
< 10kb from cel-mir-40
cel-mir-35chrII: 11537608-11537704 [+]
cel-mir-36chrII: 11537713-11537809 [+]
cel-mir-37chrII: 11537833-11537930 [+]
cel-mir-38chrII: 11537933-11538027 [+]
cel-mir-39chrII: 11538089-11538175 [+]
cel-mir-40chrII: 11538184-11538275 [+]
cel-mir-41chrII: 11538308-11538404 [+]
Database links

Mature sequence cel-miR-40-5p

Accession MIMAT0020307
Previous IDscel-miR-40*
Sequence

16 - 

aguggauguaugccaugaugaua

 - 38

Get sequence
Deep sequencing1668 reads, 16 experiments
Evidence experimental; Illumina [7]
Database links

Mature sequence cel-miR-40-3p

Accession MIMAT0000011
Previous IDscel-miR-40
Sequence

56 - 

ucaccggguguacaucagcuaa

 - 77

Get sequence
Deep sequencing2236062 reads, 17 experiments
Evidence experimental; cloned [1-3], Northern [1], 454 [4], Illumina [5,7], CLIPseq [6]
Database links
Predicted targets

References

1
PMID:11679671 "An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans" Lau NC, Lim LP, Weinstein EG, Bartel DP Science. 294:858-862(2001).
2
PMID:12672692 "The microRNAs of Caenorhabditis elegans" Lim LP, Lau NC, Weinstein EG, Abdelhakim A, Yekta S, Rhoades MW, Burge CB, Bartel DP Genes Dev. 17:991-1008(2003).
3
PMID:12747828 "MicroRNAs and other tiny endogenous RNAs in C. elegans" Ambros V, Lee RC, Lavanway A, Williams PT, Jewell D Curr Biol. 13:807-818(2003).
4
PMID:17174894 "Large-scale sequencing reveals 21U-RNAs and additional microRNAs and endogenous siRNAs in C. elegans" Ruby JG, Jan C, Player C, Axtell MJ, Lee W, Nusbaum C, Ge H, Bartel DP Cell. 127:1193-1207(2006).
5
6
PMID:20062054 "Comprehensive discovery of endogenous Argonaute binding sites in Caenorhabditis elegans" Zisoulis DG, Lovci MT, Wilbert ML, Hutt KR, Liang TY, Pasquinelli AE, Yeo GW Nat Struct Mol Biol. 17:173-179(2010).
7