Stem-loop sequence cel-mir-66

Accession

MI0000037 (change log)

Description

Caenorhabditis elegans miR-66 stem-loop

Literature search

3 open access papers mention cel-mir-66
(6 sentences)

Stem-loop

   ------     aaa       aca        a        g    gaauguu 
5'       ccaca   augccau   ugacacug uuagggau ugau       a
         |||||   |||||||   |||||||| |||||||| ||||        
3'       ggugu   ugcggua   acuguggc aauccuua acua       a
   gauguu     --a       caa        -        a    gcccuag 

Deep sequencing

906718 reads, 7.24e+03 reads per million, 17 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (WBcel235; GCA_000002985.3): chrIII: 2173108-2173206 [+]
• Overlapping transcripts:

  sense

  Y48G9A.3 ; Y48G9A.3; intron 11

Clustered miRNAs

< 10kb from cel-mir-66

• cel-mir-229: chrIII: 2172452-2172566 [+]
• cel-mir-64: chrIII: 2172848-2172957 [+]
• cel-mir-65: chrIII: 2173002-2173101 [+]
• cel-mir-66: chrIII: 2173108-2173206 [+]

Database links

• RNAcentral:URS00000F6BFE_6239
• miRBase Tracker:MI0000037

Mature sequence cel-miR-66-5p

• Accession: MIMAT0000038
• Previous IDs: cel-miR-66
• Sequence: 17 - caugacacugauuagggauguga - 39
• Deep sequencing: 906083 reads, 17 experiments
• Evidence: experimental; cloned [1-2], Northern [1], 454 [3], Illumina [4-5]
• Database links:
  • RNAcentral:URS00001B412E_6239
• Predicted targets:
  • TargetScanWorm:cel-miR-66
  • microrna.org:cel-miR-66-5p

Mature sequence cel-miR-66-3p

• Accession: MIMAT0020315
• Previous IDs: cel-miR-66*
• Sequence: 60 - aaauuccuaacggugucaaac - 80
• Deep sequencing: 592 reads, 15 experiments
• Evidence: experimental; Illumina [5]
• Database links:
  • RNAcentral:URS000044D563_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: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: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).