Stem-loop sequence cel-mir-82

Accession

MI0000053 (change log)

Description

Caenorhabditis elegans miR-82 stem-loop

Gene family

MIPF0000154; mir-81

Literature search

8 open access papers mention cel-mir-82
(32 sentences)

Stem-loop

   gaaaua     -uuuu      c       u u       a    a   ca 
5'       gguuc     agcaac gguuuuc c gugaucu caga uga  g
         |||||     |||||| ||||||| | ||||||| |||| |||  c
3'       ucaag     uuguug ccgaaag g uacuaga gucu gcu  u
   -----c     uauuu      a       u c       -    -   aa 

Deep sequencing

4111790 reads, 2.05e+04 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: 2435258-2435354 [-]
• Overlapping transcripts:

  sense

  T07D1.2.2 ; T07D1.2.2; intron 1

  T07D1.2.1 ; T07D1.2.1; intron 2

Clustered miRNAs

< 10kb from cel-mir-82

• cel-mir-82: chrX: 2435258-2435354 [-]
• cel-mir-81: chrX: 2431072-2431179 [+]

Database links

• RNAcentral:URS0000471DDD_6239
• miRBase Tracker:MI0000053

Mature sequence cel-miR-82-5p

• Accession: MIMAT0020323
• Previous IDs: cel-miR-82*
• Sequence: 22 - cgguuuucucugugaucuacaga - 44
• Deep sequencing: 1709 reads, 14 experiments
• Evidence: experimental; Illumina [6]
• Database links:
  • RNAcentral:URS0000452F8B_6239

Mature sequence cel-miR-82-3p

• Accession: MIMAT0000055
• Previous IDs: cel-miR-82
• Sequence: 61 - ugagaucaucgugaaagccagu - 82
• Deep sequencing: 4110051 reads, 17 experiments
• Evidence: experimental; cloned [1-2], 454 [3], Illumina [4,6], CLIPseq [5]
• Database links:
  • RNAcentral:URS00001394D2_6239
• Predicted targets:
  • TargetScanWorm:cel-miR-82
  • microrna.org:cel-miR-82-3p

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: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).