Stem-loop sequence rno-mir-3580

Accession

MI0015453 (change log)

Description

Rattus norvegicus miR-3580 stem-loop

Literature search

2 open access papers mention rno-mir-3580
(3 sentences)

Stem-loop

   -   u   a   c     ug    u        g   u  g 
5'  gug gcu ugc cugcu  uacu auucuggu aca ga g
    ||| ||| ||| |||||  |||| |||||||| ||| ||  
3'  cac uga aug gauga  auga ugggauca ugu cu u
   c   u   a   a     gu    -        g   -  a 

Deep sequencing

1952 reads, 84.6 reads per million, 39 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chrX: 151295615-151295695 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-3580

• rno-mir-465: chrX: 151297367-151297443 [-]
• rno-mir-3580: chrX: 151295615-151295695 [-]
• rno-mir-871: chrX: 151287787-151287863 [-]

Database links

• EntrezGene:Mir3580
• miRBase Tracker:MI0015453

Mature sequence rno-miR-3580-5p

• Accession: MIMAT0017868
• Sequence: 14 - ugcuuguacuuauucuggugac - 35
• Deep sequencing: 369 reads, 22 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-3580-5p
  • miRDB:rno-miR-3580-5p

Mature sequence rno-miR-3580-3p

• Accession: MIMAT0017869
• Sequence: 48 - ugacuaggguaguaugaguaga - 69
• Deep sequencing: 1582 reads, 36 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-3580-3p
  • miRDB:rno-miR-3580-3p

References

1. PMID:20403161 "Small RNA expression and strain specificity in the rat" Linsen SE, de Wit E, de Bruijn E, Cuppen E BMC Genomics. 11:249(2010).