Stem-loop cel-mir-259

Accession

MI0000336

Description

Caenorhabditis elegans cel-mir-259 precursor miRNA

Gene family

MIPF0000299; mir-259

Literature search

2 open access papers mention cel-mir-259
(57 sentences)

Sequence

2189 reads, 148 reads per million, 14 experiments

ucagucauugaaacgaguAAAUCUCAUCCUAAUCUGGUAGCAucuuucgaaccuugCCACCGAUUUGGCAUGGGAUUGACuuguuaaauagugacuuuuuu
..((((((((.(((((((.((((((((((.((((.(((.(((............))).))))))).)).)))))))).)))))))...)))))))).....

Structure

---uc        --a       A        -  U    U   A   ucuuu 
     agucauug   aacgagu AAUCUCAU CC AAUC GGU GCA     c
     ||||||||   ||||||| |||||||| || |||| ||| |||      
     ucagugau   uuguuCA UUAGGGUA GG UUAG CCA Cgu     g
uuuuu        aaa       G        C  U    -   C   uccaa 

Annotation confidence High

Comments

miR-259 was predicted by computational analysis and conservation in C. elegans and C. briggsae, and the microRNA confirmed by PCR amplification, cloning and sequencing [1].

Genome context

chrV: 10539025-10539125 [-]

Mature cel-miR-259-5p

• Accession: MIMAT0000314
• Description: Caenorhabditis elegans cel-miR-259-5p mature miRNA
• Sequence: 19 - AAAUCUCAUCCUAAUCUGGUAGCA - 42
• Evidence: experimental ; cloned [1-3], Illumina [4,6], CLIPseq [5]

Mature cel-miR-259-3p

• Accession: MIMAT0020342
• Description: Caenorhabditis elegans cel-miR-259-3p mature miRNA
• Sequence: 57 - CCACCGAUUUGGCAUGGGAUUGAC - 80
• Evidence: experimental ; Illumina [6]

References

1. PubMed ID: 12747828
   MicroRNAs and other tiny endogenous RNAs in C. elegans
   "Ambros V, Lee RC, Lavanway A, Williams PT, Jewell D"
   "Curr Biol (2003) 13:807-818


2. PubMed ID: 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 (2006) 127:1193-1207


3. PubMed ID: 19460142
   Dynamic expression of small non-coding RNAs, including novel microRNAs and piRNAs/21U-RNAs, during Caenorhabditis elegans development
   Kato M, de Lencastre A, Pincus Z, Slack FJ
   Genome Biol (2009) 10:R54


4. PubMed ID: 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 (2010) 17:173-179


5. PubMed ID: 15317971
   Patterns of flanking sequence conservation and a characteristic upstream motif for microRNA gene identification
   "Ohler U, Yekta S, Lim LP, Bartel DP, Burge CB"
   "RNA (2004) 10:1309-1322


6. PubMed ID: 21307183
   Improved annotation of C. elegans microRNAs by deep sequencing reveals structures associated with processing by Drosha and Dicer
   "Warf MB, Johnson WE, Bass BL"
   "RNA (2011) 17:563-577