Stem-loop sequence cel-mir-75

Accession

MI0000046 (change log)

Description

Caenorhabditis elegans miR-75 stem-loop

Gene family

MIPF0000273; mir-75

Literature search

2 open access papers mention cel-mir-75
(10 sentences)

Stem-loop

   uucuugu      -ga   a   c         ca     a    -   au 
5'        ugcuuu   aga uug agucgguug  agcuu aaua caa  c
          ||||||   ||| ||| |||||||||  ||||| |||| |||  c
3'        acgaga   ucu aac ucggccaac  ucgaa uuau guu  g
   ------g      aag   g   u         ca     a    u   aa 

Deep sequencing

54971 reads, 1.86e+03 reads per million, 16 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (WBcel235; GCA_000002985.3): chrX: 2372453-2372549 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from cel-mir-75

• cel-mir-73: chrX: 2368765-2368863 [+]
• cel-mir-74: chrX: 2369043-2369139 [+]
• cel-mir-75: chrX: 2372453-2372549 [+]

Database links

• RNAcentral:URS00002C7118_6239
• miRBase Tracker:MI0000046

Mature sequence cel-miR-75-5p

• Accession: MIMAT0015108
• Previous IDs: cel-miR-75*
• Sequence: 23 - cagucgguugcaagcuuaaaua - 44
• Deep sequencing: 2659 reads, 16 experiments
• Evidence: experimental; CLIPseq [5], Illumina [6]
• Database links:
  • RNAcentral:URS000046B9F9_6239
• Predicted targets:
  • microrna.org:cel-miR-75-5p

Mature sequence cel-miR-75-3p

• Accession: MIMAT0000047
• Previous IDs: cel-miR-75
• Sequence: 61 - uuaaagcuaccaaccggcuuca - 82
• Deep sequencing: 52308 reads, 16 experiments
• Evidence: experimental; cloned [1-2], 454 [3], Illumina [4,6], CLIPseq [5]
• Database links:
  • RNAcentral:URS000022D698_6239
• Predicted targets:
  • TargetScanWorm:cel-miR-75
  • microrna.org:cel-miR-75-3p

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).