Stem-loop sequence rno-mir-653

Accession

MI0012600 (change log)

Description

Rattus norvegicus miR-653 stem-loop

Gene family

MIPF0000435; mir-653

Literature search

2 open access papers mention rno-mir-653
(13 sentences)

Stem-loop

   -    uu  -     u     u       uu     c     caagcu 
5'  auuu  ca uucuu cagug ugaaaca  cucua ugaac      c
    ||||  || ||||| ||||| |||||||  ||||| |||||      c
3'  ugaa  gu aagaa guuau acuuugu  ggggu acuug      a
   a    uc  u     c     c       uu     c     aacaaa 

Deep sequencing

27927 reads, 21.3 reads per million, 315 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr4: 28658882-28658978 [-]
• Overlapping transcripts:

  sense

  ENSRNOT00000013910 ; Calcr-201; intron 4

  ENSRNOT00000013937 ; Calcr-202; intron 4

Clustered miRNAs

< 10kb from rno-mir-653

• rno-mir-489: chr4: 28659523-28659628 [-]
• rno-mir-653: chr4: 28658882-28658978 [-]

Database links

• EntrezGene:Mir653
• miRBase Tracker:MI0012600

Mature sequence rno-miR-653-5p

• Accession: MIMAT0012838
• Previous IDs: rno-miR-653
• Sequence: 20 - uugaaacauucucuacugaac - 40
• Deep sequencing: 26980 reads, 313 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-653-5p
  • miRDB:rno-miR-653-5p
  • microrna.org:rno-miR-653-5p

Mature sequence rno-miR-653-3p

• Accession: MIMAT0017361
• Previous IDs: rno-miR-653*
• Sequence: 57 - uucacugggguuuguuucacua - 78
• Deep sequencing: 947 reads, 145 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-653-3p
  • miRDB:rno-miR-653-3p

References

1. PMID:18215311 "miRNAminer: a tool for homologous microRNA gene search" Artzi S, Kiezun A, Shomron N BMC Bioinformatics. 9:39(2008).
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).