Stem-loop sequence rno-mir-374

Accession

MI0003552 (change log)

Description

Rattus norvegicus miR-374 stem-loop

Gene family

MIPF0000288; mir-374

Literature search

9 open access papers mention rno-mir-374
(17 sentences)

Stem-loop

         ug au          c          u 
5' cucgga  g  auaauacaac ugcuaagugu c
   ||||||  |  |||||||||| ||||||||||  
3' gagccu  u  uauuauguug acgauucacg u
         gu au          c          a 

Deep sequencing

44923 reads, 2.25 reads per million, 488 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chrX: 74443648-74443715 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-374

• rno-mir-374: chrX: 74443648-74443715 [-]
• rno-mir-421: chrX: 74443492-74443570 [-]

Database links

• EntrezGene:Mir374
• miRBase Tracker:MI0003552

Mature sequence rno-miR-374-5p

• Accession: MIMAT0003208
• Previous IDs: rno-miR-374
• Sequence: 10 - auauaauacaaccugcuaagug - 31
• Deep sequencing: 26327 reads, 483 experiments
• Evidence: experimental; cloned [1-3], Northern [2], SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-374-5p
  • miRDB:rno-miR-374-5p
  • microrna.org:rno-miR-374-5p

Mature sequence rno-miR-374-3p

• Accession: MIMAT0017223
• Previous IDs: rno-miR-374*
• Sequence: 40 - cuuagcacguuguauuauuauu - 61
• Deep sequencing: 18596 reads, 472 experiments
• Evidence: experimental; SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-374-3p
  • miRDB:rno-miR-374-3p

References

1. PMID:16274478 "Identification of clustered microRNAs using an ab initio prediction method" Sewer A, Paul N, Landgraf P, Aravin A, Pfeffer S, Brownstein MJ, Tuschl T, van Nimwegen E, Zavolan M BMC Bioinformatics. 6:267(2005).
2. 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).
3. 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).
4. 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).