Stem-loop cel-mir-253

Accession

MI0000329

Description

Caenorhabditis elegans cel-mir-253 precursor miRNA mir-253

Gene
family

RF01064; mir-253

Sequence

184460 reads, 693 reads per million, 16 experiments

gaauuguuccgaucgccgcuCUUUUCACACACCUCACUAACAcugaccaccgaugcauagaugUUAGUAGGCGUUGUGGGAAGGGcggcgacagugaacgucguuuc
((..((((((..((((((((((((((((((.(((.((((((((((..((....))..))).)))))))))).).)))))))))))))))))..).))))))).....

Structure

-----  au     - ga                 - A   C       -   ac  c 
     ga  uguuc c  ucgccgcuCUUUUCACA C CCU ACUAACA cug  ca c
     ||  ||||| |  ||||||||||||||||| | ||| ||||||| |||  ||  
     cu  gcaag g  agcggcGGGAAGGGUGU G GGA UGAUUgu gau  gu g
cuuug  --     u ac                 U C   -       a   ac  a 

Annotation confidence Medium

Comments

A mature miRNA product from the 5' arm of this hairpin precursor was first identified [1]. A later large scale cloning and sequencing study identified a 3' product and showed it to be the dominant mature miRNA [2].

Genome context

chrV: 5780510-5780616 [-]

Mature cel-miR-253-5p

• Accession: MIMAT0000309
• Description: Caenorhabditis elegans cel-miR-253-5p mature miRNA
• Sequence: 21 - CUUUUCACACACCUCACUAACA - 42
• Evidence: experimental ; Northern [1], PCR [1], CLIPseq [4], Illumina [5]

Mature cel-miR-253-3p

• Accession: MIMAT0004215
• Description: Caenorhabditis elegans cel-miR-253-3p mature miRNA
• Sequence: 64 - UUAGUAGGCGUUGUGGGAAGGG - 85
• Evidence: experimental ; cloned [2], Illumina [3,5], CLIPseq [4]

References

1. PubMed ID: 12672692
   The microRNAs of Caenorhabditis elegans
   "Lim LP, Lau NC, Weinstein EG, Abdelhakim A, Yekta S, Rhoades MW, Burge CB, Bartel DP"
   "Genes Dev (2003) 17:991-1008


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: 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