Stem-loop sequence dre-mir-20b

Accession

MI0001899 (change log)

Description

Danio rerio miR-20b stem-loop

Gene family

MIPF0000001; mir-17

Literature search

2 open access papers mention dre-mir-20b
(3 sentences)

Stem-loop

      uu     u      -ucca      uc   g     g   ug    
5' gag  ugucc ggcagu     aagugc  aca ugcag uag  cca 
   |||  ||||| ||||||     ||||||  ||| ||||| |||  || g
3' cuu  gcagg ccguua     uucacg  ugu acguc auc  ggu 
      cc     -      ugaac      uc   a     -   ua    

Deep sequencing

32396 reads, 1.18e+03 reads per million, 11 experiments

Confidence

Annotation confidence: high

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Genome context

Coordinates (GRCz11; GCA_000002035.4)	Overlapping transcripts
chr14: 31467167-31467260 [-]	intergenic
KZ115452.1: 23271-23364 [-]	intergenic

Clustered miRNAs

< 10kb from dre-mir-20b

• dre-mir-18c: chr14: 31467376-31467460 [-]
• dre-mir-20b: chr14: 31467167-31467260 [-]
• dre-mir-19c: chr14: 31467026-31467130 [-]
• dre-mir-363: chr14: 31466671-31466797 [-]

Database links

• EntrezGene:mir20b
• EntrezGene:mir20b
• RNAcentral:URS0000759C9C_7955
• miRBase Tracker:MI0001899

Mature sequence dre-miR-20b-5p

• Accession: MIMAT0001778
• Previous IDs: dre-miR-20b
• Sequence: 20 - caaagugcucacagugcagguag - 42
• Deep sequencing: 32198 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS000075B3FB_7955
• Predicted targets:
  • TargetScanFish:dre-miR-20b

Mature sequence dre-miR-20b-3p

• Accession: MIMAT0031939
• Sequence: 56 - acugcaaugucugcacuucaagu - 78
• Deep sequencing: 197 reads, 4 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000774B2B_7955

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).