miRBase entry: cel-mir-55

Stem-loop cel-mir-55


Accession
MI0000026
Description
Caenorhabditis elegans cel-mir-55 precursor miRNA
Gene family
MIPF0000270; mir-55

Literature search
3 open access papers mention cel-mir-55
(8 sentences)

Sequence

421729 reads, 3706 reads per million, 16 experiments
agauuuggaacuuaaugggacuCGGCAGAAACCUAUCGGUUAUAcuuuuuggauaugcuaUACCCGUAUAAGUUUCUGCUGAGccccuuauuccuguu
......((((..(((.(((.((((((((((((.((((((.(((((...........).)))).))).))).))))))))))))))).)))))))....

Structure
agauuu    cu   u   a            C   -   U    - uuuu 
      ggaa  uaa ggg cuCGGCAGAAAC UAU CGG UAUA c    u
      ||||  ||| ||| |||||||||||| ||| ||| |||| |    g
      ccuu  auu ccc GAGUCGUCUUUG AUA GCC AUau g    g
--uugu    --   c   -            A   U   C    c uaua 


Annotation confidence High
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Genome context
chrX: 13144827-13144924 [-]
Clustered miRNAs
3 other miRNAs are < 10 kb from cel-mir-55
Name Accession Chromosome Start End Strand Confidence




Database links

Mature cel-miR-55-3p

Accession MIMAT0000026
Description Caenorhabditis elegans cel-miR-55-3p mature miRNA
Sequence 61 - UACCCGUAUAAGUUUCUGCUGAG - 83
Evidence experimental
cloned [1-3], 454 [4], Illumina [5-6]
Database links
Predicted targets

Mature cel-miR-55-5p

Accession MIMAT0020313
Description Caenorhabditis elegans cel-miR-55-5p mature miRNA
Sequence 23 - CGGCAGAAACCUAUCGGUUAUA - 44
Evidence experimental
Illumina [6]
Database links

References

  1. PubMed ID: 11679671
    An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
    "Lau NC, Lim LP, Weinstein EG, Bartel DP"
    "Science (2001) 294:858-862

  2. PubMed ID: 12672692
    The microRNAs of Caenorhabditis elegans
    "Lim LP, Lau NC, Weinstein EG, Abdelhakim A, Yekta S, Rhoades MW, Burge CB, Bartel DP"
    "Genes Dev (2003) 17:991-1008

  3. PubMed ID: 12747828
    MicroRNAs and other tiny endogenous RNAs in C. elegans
    "Ambros V, Lee RC, Lavanway A, Williams PT, Jewell D"
    "Curr Biol (2003) 13:807-818

  4. PubMed ID: 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 (2006) 127:1193-1207

  5. PubMed ID: 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 (2009) 10:R54

  6. PubMed ID: 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 (2011) 17:563-577