Stem-loop sequence cel-mir-241

Accession

MI0000317 (change log)

Description

Caenorhabditis elegans miR-241 stem-loop

Gene family

MIPF0000248; mir-241

Literature search

27 open access papers mention cel-mir-241
(121 sentences)

Stem-loop

   --c  gg      a  u        g  c    -     -   cau ca 
5'    gg  guguca ag ugagguag ug gaga aauga cgg   c  u
      ||  |||||| || |||||||| || |||| ||||| |||   |   
3'    uc  uacagu uc acuucguc ac cucu uuacu gcu   g  a
   gca  gg      g  u        g  u    g     u   aau au 

Deep sequencing

490480 reads, 1.58e+03 reads per million, 15 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (WBcel235; GCA_000002985.3): chrV: 14366188-14366283 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from cel-mir-241

• cel-mir-241: chrV: 14366188-14366283 [-]
• cel-mir-48: chrV: 14364412-14364509 [-]

Database links

• RNAcentral:URS000040AE62_6239
• miRBase Tracker:MI0000317

Mature sequence cel-miR-241-5p

• Accession: MIMAT0000297
• Previous IDs: cel-miR-241
• Sequence: 16 - ugagguaggugcgagaaauga - 36
• Deep sequencing: 489119 reads, 15 experiments
• Evidence: experimental; cloned [1-2], Northern [1], Illumina [3,5], CLIPseq [4]
• Database links:
  • RNAcentral:URS00002BFC83_6239
• Predicted targets:
  • TargetScanWorm:cel-miR-241
  • microrna.org:cel-miR-241-5p

Mature sequence cel-miR-241-3p

• Accession: MIMAT0020335
• Previous IDs: cel-miR-241*
• Sequence: 60 - auugucucucagcugcuucauc - 81
• Deep sequencing: 1279 reads, 12 experiments
• Evidence: experimental; Illumina [5]
• Database links:
  • RNAcentral:URS000040F239_6239

References

1. 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).
2. 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).
3. PMID: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. 10:R54(2009).
4. 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).
5. PMID: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. 17:563-577(2011).