Stem-loop sequence rno-mir-450a

Accession

MI0001654 (change log)

Previous IDs

rno-mir-450

Description

Rattus norvegicus miR-450a stem-loop

Gene family

MIPF0000128; mir-450

Literature search

4 open access papers mention rno-mir-450a
(15 sentences)

Stem-loop

   --gaga    cg         u     u              ugc 
5'       gaug  gagcuguuu ugcga guguuccuaaugug   u
         ||||  ||||||||| ||||| ||||||||||||||   a
3'       cuac  uuugauaaa acguu uacaaggguuauau   c
   acacag    au         u     u              uaa 

Deep sequencing

538011 reads, 363 reads per million, 494 experiments

Confidence

Annotation confidence: high

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Comments

Xie et al. [1] refer to this sequence by the internal identifier MIR238. The sequence is unrelated to C. elegans mir-238 (MI0000313).

Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chrX: 158153377-158153467 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-450a

• rno-mir-322-1: chrX: 158148161-158148255 [+]
• rno-mir-503-1: chrX: 158148476-158148546 [+]
• rno-mir-351-1: chrX: 158149206-158149286 [+]
• rno-mir-542-1: chrX: 158152146-158152224 [+]
• rno-mir-450b-1: chrX: 158153254-158153322 [+]
• rno-mir-450a: chrX: 158153377-158153467 [+]
• rno-mir-542-2: chrX: 158158885-158158963 [+]

Database links

• EntrezGene:Mir450a
• miRBase Tracker:MI0001654

Mature sequence rno-miR-450a-5p

• Accession: MIMAT0001547
• Previous IDs: rno-miR-450;rno-miR-450a
• Sequence: 18 - uuuugcgauguguuccuaaugu - 39
• Deep sequencing: 537325 reads, 494 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-450a-5p
  • miRDB:rno-miR-450a-5p
  • microrna.org:rno-miR-450a-5p

Mature sequence rno-miR-450a-3p

• Accession: MIMAT0017183
• Previous IDs: rno-miR-450a*
• Sequence: 52 - uauugggaacauuuugcauaa - 72
• Deep sequencing: 685 reads, 172 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-450a-3p
  • miRDB:rno-miR-450a-3p

References

1. PMID:15735639 "Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals" Xie X, Lu J, Kulbokas EJ, Golub TR, Mootha V, Lindblad-Toh K, Lander ES, Kellis M Nature. 434:338-345(2005).
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).