Stem-loop sequence rno-mir-449c

Accession

MI0015402 (change log)

Description

Rattus norvegicus miR-449c stem-loop

Gene family

MIPF0000133; mir-449

Literature search

7 open access papers mention rno-mir-449c
(15 sentences)

Stem-loop

   aa  --g        u    ca  c      uu        g     -a  ac 
5'   gc   ugggugug caga  gg agugca  gcuagcug cuguu  ga  u
     ||   |||||||| ||||  || ||||||  |||||||| |||||  ||   
3'   cg   auucacgu gucu  cc ucacgu  cgaucggu gacaa  cu  u
   --  aag        c    -c  a      --        -     cc  gc 

Deep sequencing

2649 reads, 14.2 reads per million, 240 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr2: 44896066-44896164 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-449c

• rno-mir-449c: chr2: 44896066-44896164 [+]
• rno-mir-449a: chr2: 44897601-44897691 [+]

Database links

• EntrezGene:Mir449c
• miRBase Tracker:MI0015402

Mature sequence rno-miR-449c-5p

• Accession: MIMAT0017803
• Sequence: 20 - aggcagugcauugcuagcugg - 40
• Deep sequencing: 2635 reads, 239 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-449c-5p
  • miRDB:rno-miR-449c-5p

Mature sequence rno-miR-449c-3p

• Accession: MIMAT0017804
• Sequence: 45 - uagaacuucgucccaac - 61
• Deep sequencing: 4 reads, 4 experiments
• Evidence: experimental; SOLiD [1]
• Predicted targets:
  • TargetScanVert:rno-miR-449c-3p
  • miRDB:rno-miR-449c-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).