Stem-loop sequence rno-mir-216a

Accession

MI0000955 (change log)

Previous IDs

rno-mir-216

Description

Rattus norvegicus miR-216a stem-loop

Gene family

MIPF0000054; mir-216

Literature search

13 open access papers mention rno-mir-216a
(40 sentences)

Stem-loop

   -----------guua   a  ag     u         cu   a        --   uc 
5'                gcu ug  uuagu uaaucucag  ggc acugugag  aug  c
                  ||| ||  ||||| |||||||||  ||| ||||||||  |||  c
3'                cga ac  aaucg auuaggguc  cug ugacacuc  uac  u
   cuccaguuccuuuaa   g  -a     u         -u   g        cu   ua 

Deep sequencing

240732 reads, 561 reads per million, 246 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr14: 113112129-113112234 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-216a

• rno-mir-216a: chr14: 113112129-113112234 [+]
• rno-mir-217: chr14: 113119529-113119633 [+]

Database links

• EntrezGene:Mir216a
• miRBase Tracker:MI0000955

Mature sequence rno-miR-216a-5p

• Accession: MIMAT0000886
• Previous IDs: rno-miR-216;rno-miR-216a
• Sequence: 19 - uaaucucagcuggcaacuguga - 40
• Deep sequencing: 218039 reads, 234 experiments
• Evidence: experimental; cloned [1], SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-216a-5p
  • miRDB:rno-miR-216a-5p
  • microrna.org:rno-miR-216a-5p

Mature sequence rno-miR-216a-3p

• Accession: MIMAT0017160
• Previous IDs: rno-miR-216a*
• Sequence: 59 - cacaguggucucugggauuaug - 80
• Deep sequencing: 22685 reads, 129 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-216a-3p
  • miRDB:rno-miR-216a-3p

References

1. PMID:17604727 "A mammalian microRNA expression atlas based on small RNA library sequencing" Landgraf P, Rusu M, Sheridan R, Sewer A, Iovino N, Aravin A, Pfeffer S, Rice A, Kamphorst AO, Landthaler M, Lin C, Socci ND, Hermida L, Fulci V, Chiaretti S, Foa R, Schliwka J, Fuchs U, Novosel A, Muller RU, Schermer B, Bissels U, Inman J, Phan Q, Chien M Cell. 129:1401-1414(2007).
2. 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).