Stem-loop sequence cel-mir-233

Accession

MI0000308 (change log)

Description

Caenorhabditis elegans miR-233 stem-loop

Gene family

MIPF0000312; mir-233

Literature search

5 open access papers mention cel-mir-233
(107 sentences)

Stem-loop

   aua    -   uu          c   c -        c    u  uaac 
5'    uagc auc  ucugucucgc cau c cguugcuc aaua uc    a
      |||| |||  |||||||||| ||| | |||||||| |||| ||    a
3'    gucg uag  agauagggcg gua g guaacgag uuau ag    c
   --c    g   uc          u   c c        -    u  ugaa 

Deep sequencing

18814 reads, 176 reads per million, 17 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (WBcel235; GCA_000002985.3): chrX: 12078587-12078684 [-]
• Overlapping transcripts:

  sense

  W03G11.4.1 ; W03G11.4.1; intron 2

  W03G11.4.3 ; W03G11.4.3; intron 2

  W03G11.4.2 ; W03G11.4.2; intron 3

Database links

• RNAcentral:URS0000565B37_6239
• miRBase Tracker:MI0000308

Mature sequence cel-miR-233-5p

• Accession: MIMAT0020329
• Previous IDs: cel-miR-233*
• Sequence: 19 - ucgcccaucccguugcuccaaua - 41
• Deep sequencing: 24 reads, 9 experiments
• Evidence: experimental; Illumina [6]
• Database links:
  • RNAcentral:URS000057B847_6239

Mature sequence cel-miR-233-3p

• Accession: MIMAT0000288
• Previous IDs: cel-miR-233
• Sequence: 61 - uugagcaaugcgcaugugcggga - 83
• Deep sequencing: 18776 reads, 17 experiments
• Evidence: experimental; cloned [1], Northern [1], 454 [3], Illumina [4,6], CLIPseq [5]
• Database links:
  • RNAcentral:URS0000116309_6239
• Predicted targets:
  • TargetScanWorm:cel-miR-233
  • microrna.org:cel-miR-233-3p

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: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).
3. 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).
4. 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).
5. 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).
6. 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).