Stem-loop sequence rno-mir-883

Accession

MI0006126 (change log)

Description

Rattus norvegicus miR-883 stem-loop

Gene family

MIPF0000389; mir-883

Literature search

3 open access papers mention rno-mir-883
(4 sentences)

Stem-loop

   -u  -acu             a  a          uuu 
5'   gc    caaugcugagaga gu gcaguuacuu   a
     ||    ||||||||||||| || ||||||||||   c
3'   cg    guuaugacucucu ca cgucaaugaa   u
   cu  gaau             a  a          uuc 

Deep sequencing

1395 reads, 85.4 reads per million, 41 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chrX: 151260703-151260779 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-883

• rno-mir-883: chrX: 151260703-151260779 [-]
• rno-mir-742: chrX: 151260313-151260389 [-]
• rno-mir-743b: chrX: 151253318-151253394 [-]
• rno-mir-743a: chrX: 151252828-151252903 [-]

Database links

• EntrezGene:Mir883
• miRBase Tracker:MI0006126

Mature sequence rno-miR-883-5p

• Accession: MIMAT0017294
• Previous IDs: rno-miR-883*
• Sequence: 10 - ugcugagagaaguagcaguuacu - 32
• Deep sequencing: 200 reads, 20 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-883-5p
  • miRDB:rno-miR-883-5p

Mature sequence rno-miR-883-3p

• Accession: MIMAT0005290
• Previous IDs: rno-miR-883
• Sequence: 46 - uaacugcaacaucucucaguau - 67
• Deep sequencing: 1195 reads, 40 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-883-3p
  • miRDB:rno-miR-883-3p
  • microrna.org:rno-miR-883-3p

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).