Stem-loop sequence rno-mir-23a

Accession

MI0000852 (change log)

Description

Rattus norvegicus miR-23a stem-loop

Gene family

MIPF0000027; mir-23

Literature search

48 open access papers mention rno-mir-23a
(290 sentences)

Stem-loop

   c  c   c     -       g    g      a  c 
5'  gg cgg ugggg uuccugg gaug gauuug ug c
    || ||| ||||| ||||||| |||| |||||| || a
3'  cc guc accuu agggacc uuac cuaaac ac g
   c  a   a     u       g    a      -  u 

Deep sequencing

1059765 reads, 832 reads per million, 510 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr19: 25318582-25318656 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-23a

• rno-mir-23a: chr19: 25318582-25318656 [+]
• rno-mir-27a: chr19: 25318736-25318822 [+]
• rno-mir-24-2: chr19: 25318863-25318970 [+]

Database links

• EntrezGene:Mir23a
• miRBase Tracker:MI0000852

Mature sequence rno-miR-23a-5p

• Accession: MIMAT0004712
• Previous IDs: rno-miR-23a*
• Sequence: 10 - gggguuccuggggaugggauuu - 31
• Deep sequencing: 124 reads, 94 experiments
• Evidence: experimental; cloned [2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-23a-5p
  • miRDB:rno-miR-23a-5p
  • microrna.org:rno-miR-23a-5p

Mature sequence rno-miR-23a-3p

• Accession: MIMAT0000792
• Previous IDs: rno-miR-23a
• Sequence: 46 - aucacauugccagggauuucc - 66
• Deep sequencing: 1059641 reads, 510 experiments
• Evidence: experimental; cloned [1-2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-23a-3p
  • miRDB:rno-miR-23a-3p
  • microrna.org:rno-miR-23a-3p

References

1. PMID:16766679 "Identification and characterization of two novel classes of small RNAs in the mouse germline: retrotransposon-derived siRNAs in oocytes and germline small RNAs in testes" Watanabe T, Takeda A, Tsukiyama T, Mise K, Okuno T, Sasaki H, Minami N, Imai H Genes Dev. 20:1732-1743(2006).
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).