Stem-loop sequence dre-mir-454b

Accession

MI0002076 (change log)

Description

Danio rerio miR-454b stem-loop

Gene family

MIPF0000174; mir-454

Literature search

1 open access papers mention dre-mir-454b
(2 sentences)

Stem-loop

       aa    ------     c  g           ---         cu       ucuca 
5' gaua  ugca      ucuug ag cgagacccuau   caauauugc  cugcuuu     c
   ||||  ||||      ||||| || |||||||||||   |||||||||  |||||||     u
3' cuau  acgu      ggaau uc guucugggaua   guuauaacg  gaugagg     g
       -a    cuaauc     u  a           uuc         -u       uauuu 

Deep sequencing

25411 reads, 1.27e+04 reads per million, 12 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr5: 13296307-13296422 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dre-mir-454b

• dre-mir-130c-2: chr5: 13288828-13288908 [+]
• dre-mir-301b: chr5: 13289353-13289433 [+]
• dre-mir-454b: chr5: 13296307-13296422 [+]
• dre-mir-130b: chr5: 13299331-13299414 [+]

Database links

• EntrezGene:mir454b
• EntrezGene:mir454b
• RNAcentral:URS000063AE30_7955
• miRBase Tracker:MI0002076

Mature sequence dre-miR-454b

• Accession: MIMAT0001878
• Sequence: 66 - uagugcaauauugcuuauaggg - 87
• Deep sequencing: 25128 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS000075BF7E_7955
• Predicted targets:
  • TargetScanFish:dre-miR-454b

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).