Stem-loop sequence rno-mir-154

Accession

MI0000923 (change log)

Description

Rattus norvegicus miR-154 stem-loop

Gene family

MIPF0000018; mir-154

Literature search

7 open access papers mention rno-mir-154
(12 sentences)

Stem-loop

   gc      u            u      ugcc    - uuu 
5'   ggugcu gaagauagguua ccgugu    uucg c   a
     |||||| |||||||||||| ||||||    |||| |   u
3'   ccauga uuuuuauccagu ggcaca    aagc g   u
   aa      c            u      uacu    a ugc 

Deep sequencing

16617 reads, 7.8 reads per million, 359 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133888586-133888669 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-154

• rno-mir-544: chr6: 133879169-133879246 [+]
• rno-mir-3592: chr6: 133884161-133884276 [-]
• rno-mir-382: chr6: 133884178-133884257 [+]
• rno-mir-134: chr6: 133884547-133884619 [+]
• rno-mir-668: chr6: 133885141-133885208 [+]
• rno-mir-485: chr6: 133885299-133885377 [+]
• rno-mir-154: chr6: 133888586-133888669 [+]
• rno-mir-496: chr6: 133889283-133889361 [+]
• rno-mir-377: chr6: 133890690-133890761 [+]
• rno-mir-541: chr6: 133892655-133892744 [+]
• rno-mir-409b: chr6: 133893418-133893497 [-]
• rno-mir-409a: chr6: 133893419-133893495 [+]
• rno-mir-412: chr6: 133893571-133893640 [+]
• rno-mir-3578: chr6: 133893672-133893788 [-]
• rno-mir-369: chr6: 133893693-133893771 [+]
• rno-mir-410: chr6: 133893997-133894072 [+]

Database links

• EntrezGene:Mir154
• miRBase Tracker:MI0000923

Mature sequence rno-miR-154-5p

• Accession: MIMAT0000856
• Previous IDs: rno-miR-154
• Sequence: 15 - uagguuauccguguugccuucg - 36
• Deep sequencing: 16290 reads, 356 experiments
• Evidence: experimental; cloned [1-2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-154-5p
  • miRDB:rno-miR-154-5p
  • microrna.org:rno-miR-154-5p

Mature sequence rno-miR-154-3p

• Accession: MIMAT0017136
• Previous IDs: rno-miR-154*
• Sequence: 51 - aaucauacacgguugaccuauu - 72
• Deep sequencing: 320 reads, 102 experiments
• Evidence: experimental; SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-154-3p
  • miRDB:rno-miR-154-3p

References

1. PMID:15345052 "Microarray analysis of microRNA expression in the developing mammalian brain" Miska EA, Alvarez-Saavedra E, Townsend M, Yoshii A, Sestan N, Rakic P, Constantine-Paton M, Horvitz HR Genome Biol. 5:R68(2004).
2. 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).
3. 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).