Stem-loop sequence dre-mir-17a-1

Accession

MI0001897 (change log)

Description

Danio rerio miR-17a-1 stem-loop

Gene family

MIPF0000001; mir-17

Literature search

20 open access papers mention dre-mir-17a-1
(169 sentences)

Stem-loop

      cuuu    a u   cuu      ---u     -        -ca        a  g     g   -    a 
5' gga    cuug g gga   gguugg    gucaa uguauugu   aagugcuu ca ugcag uag uauu u
   |||    |||| | |||   ||||||    ||||| ||||||||   |||||||| || ||||| ||| ||||  
3' ccu    ggac c ccu   ccaauu    caguu acauaacg   uucacgga gu acguc auc auaa g
      --ac    - u   --u      uuac     c        auc        g  g     -   u    g 

Deep sequencing

33446 reads, 1.2e+03 reads per million, 11 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr1: 3298112-3298249 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dre-mir-17a-1

• dre-mir-17a-1: chr1: 3298112-3298249 [-]
• dre-mir-18a: chr1: 3298006-3298088 [-]
• dre-mir-19a: chr1: 3297848-3297936 [-]
• dre-mir-20a: chr1: 3297603-3297755 [-]
• dre-mir-19b: chr1: 3297484-3297570 [-]
• dre-mir-92a-1: chr1: 3297367-3297451 [-]

Database links

• EntrezGene:mir17a-1
• EntrezGene:mir17a-1
• RNAcentral:URS000075DCCB_7955
• miRBase Tracker:MI0001897

Mature sequence dre-miR-17a-5p

• Accession: MIMAT0001777
• Previous IDs: dre-miR-17a
• Sequence: 41 - caaagugcuuacagugcaggua - 62
• Deep sequencing: 64667 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS0000130255_7955
• Predicted targets:
  • TargetScanFish:dre-miR-17a

Mature sequence dre-miR-17a-3p

• Accession: MIMAT0003396
• Previous IDs: dre-miR-17a*
• Sequence: 79 - acugcaguggaggcacuucuag - 100
• Deep sequencing: 1079 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS000075B6B7_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).