Stem-loop sequence dre-mir-130c-1

Accession

MI0001987 (change log)

Description

Danio rerio miR-130c-1 stem-loop

Gene family

MIPF0000034; mir-130

Literature search

5 open access papers mention dre-mir-130c-1
(12 sentences)

Stem-loop

           uc  uac     uauu   ca        ---   u         uc         a  ggcca 
5' gggagagg  ug   gguga    gac  uguuuugu   cca ugcccuuuu  uguuguacu cu     a
   ||||||||  ||   |||||    |||  ||||||||   ||| |||||||||  ||||||||| ||     u
3' uccucucc  ac   ccacu    cug  acaagaua   ggu acgggaaaa  auaacguga ga     c
           -c  ucu     --uc   ag        guc   u         uu         c  gaaga 

Deep sequencing

40600 reads, 1.33e+03 reads per million, 11 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr10: 17453363-17453503 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dre-mir-130c-1

• dre-mir-130c-1: chr10: 17453363-17453503 [+]
• dre-mir-301c: chr10: 17454490-17454572 [+]

Database links

• EntrezGene:mir130c-1
• EntrezGene:mir130c-1
• RNAcentral:URS000075E717_7955
• miRBase Tracker:MI0001987

Mature sequence dre-miR-130c-5p

• Accession: MIMAT0031969
• Sequence: 43 - gcccuuuuucuguuguacuacu - 64
• Deep sequencing: 573 reads, 9 experiments
• Evidence: not experimental

Mature sequence dre-miR-130c-3p

• Accession: MIMAT0001828
• Previous IDs: dre-miR-130c
• Sequence: 80 - cagugcaauauuaaaagggcau - 101
• Deep sequencing: 80600 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS00004D1582_7955
• Predicted targets:
  • TargetScanFish:dre-miR-130c

References

1. PMID:15937218 "The developmental miRNA profiles of zebrafish as determined by small RNA cloning" Chen PY, Manninga H, Slanchev K, Chien M, Russo JJ, Ju J, Sheridan R, John B, Marks DS, Gaidatzis D, Sander C, Zavolan M, Tuschl T Genes Dev. 19:1288-1293(2005).