Stem-loop sequence cel-mir-86

Accession

MI0000057 (change log)

Description

Caenorhabditis elegans miR-86 stem-loop

Gene family

MIPF0000247; mir-86

Literature search

9 open access papers mention cel-mir-86
(23 sentences)

Stem-loop

   ---      -c  g   -           g  uu   a   u     a gu 
5'    cguguc  ac ccg ucuaagugaau cu  gcc cag cuucg u  u
      ||||||  || ||| ||||||||||| ||  ||| ||| ||||| |  c
3'    gcacag  ug ggc ggauucgcuua ga  cgg guc gaagu a  u
   acg      uu  a   c           -  cu   -   c     a ag 

Deep sequencing

46441 reads, 950 reads per million, 16 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (WBcel235; GCA_000002985.3): chrIII: 11936637-11936734 [-]
• Overlapping transcripts:

  sense

  Y56A3A.7a ; Y56A3A.7a; intron 9

  Y56A3A.7b ; Y56A3A.7b; intron 11

Clustered miRNAs

< 10kb from cel-mir-86

• cel-mir-8211: chrIII: 11936916-11936980 [-]
• cel-mir-86: chrIII: 11936637-11936734 [-]

Database links

• RNAcentral:URS00004C0694_6239
• miRBase Tracker:MI0000057

Mature sequence cel-miR-86-5p

• Accession: MIMAT0000059
• Previous IDs: cel-miR-86
• Sequence: 16 - uaagugaaugcuuugccacaguc - 38
• Deep sequencing: 32049 reads, 16 experiments
• Evidence: experimental; cloned [1-3], 454 [4], Illumina [5,7], CLIPseq [6]
• Database links:
  • RNAcentral:URS00004DC042_6239
• Predicted targets:
  • TargetScanWorm:cel-miR-86
  • microrna.org:cel-miR-86-5p

Mature sequence cel-miR-86-3p

• Accession: MIMAT0020776
• Sequence: 60 - cugggcucagauucgcuuaggc - 81
• Deep sequencing: 14085 reads, 16 experiments
• Evidence: experimental; Illumina [7]
• Database links:
  • RNAcentral:URS000059F36E_6239

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. 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).
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. 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).