Stem-loop sequence dre-mir-16a

Accession

MI0001894 (change log)

Description

Danio rerio miR-16a stem-loop

Gene family

MIPF0000006; mir-15

Literature search

9 open access papers mention dre-mir-16a
(15 sentences)

Stem-loop

      u   cg  uu           -        u u   aua  c 
5' ccu ccu  cu  agcagcacgua aauauugg g guu   gu a
   ||| |||  ||  ||||||||||| |||||||| | |||   ||  
3' gga gga  ga  ucgucgugugu uuauaacc c caa   cg a
      c   au  cu           a        - -   --c  g 

Deep sequencing

23403 reads, 1.49e+03 reads per million, 11 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr15: 1543857-1543943 [+]
• Overlapping transcripts:

  sense

  OTTDART00000025942 ; smc4-001; intron 5

  ENSDART00000130413 ; smc4-001; intron 5

  ENSDART00000056765 ; smc4-201; intron 5

Clustered miRNAs

< 10kb from dre-mir-16a

• dre-mir-15c: chr15: 1543686-1543768 [+]
• dre-mir-16a: chr15: 1543857-1543943 [+]

Database links

• EntrezGene:mir16a
• EntrezGene:mir16a
• RNAcentral:URS000075D0D6_7955
• miRBase Tracker:MI0001894

Mature sequence dre-miR-16a

• Accession: MIMAT0001774
• Sequence: 13 - uagcagcacguaaauauuggug - 34
• Deep sequencing: 23349 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS00001996C3_7955
• Predicted targets:
  • TargetScanFish:dre-miR-16a

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).