Stem-loop sequence dre-mir-196a-1

Accession

MI0001372 (change log)

Previous IDs

dre-mir-196a

Description

Danio rerio miR-196a-1 stem-loop

Gene family

MIPF0000031; mir-196

Literature search

9 open access papers mention dre-mir-196a-1
(92 sentences)

Stem-loop

   ------------c   c     gu        u          a          auu    
5'              gcg ggcug  gcgugguu agguaguuuc uguuguuggg   ggc 
                ||| |||||  |||||||| |||||||||| ||||||||||   || u
3'              ugc uugac  ugcauuag uccgucaaag acaacagcuc   ccu 
   cgggaacuacuuc   -     --        u          a          ggu    

Deep sequencing

18544 reads, 727 reads per million, 11 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr23: 36088091-36088196 [+]
• Overlapping transcripts:

  sense

  OTTDART00000059220 ; hoxc3a-004; intron 1

  ENSDART00000154825 ; hoxc3a-004; intron 1

  ENSDART00000053295 ; hoxc10a-201; intron 2

  antisense

  OTTDART00000059827 ; hoxc10a-001; exon 1

  ENSDART00000153674 ; mir196a-1-001; exon 1

Database links

• EntrezGene:mir196a-1
• EntrezGene:mir196a-1
• RNAcentral:URS000075CD98_7955
• miRBase Tracker:MI0001372

Mature sequence dre-miR-196a-5p

• Accession: MIMAT0001276
• Previous IDs: dre-miR-196a
• Sequence: 21 - uagguaguuucauguuguuggg - 42
• Deep sequencing: 35528 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS00000DA6A7_7955
• Predicted targets:
  • TargetScanFish:dre-miR-196a

References

1. PMID:12624257 "Vertebrate microRNA genes" Lim LP, Glasner ME, Yekta S, Burge CB, Bartel DP Science. 299:1540(2003).
2. 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).