Stem-loop sequence rno-mir-20a

Accession

MI0000638 (change log)

Previous IDs

rno-mir-20

Description

Rattus norvegicus miR-20a stem-loop

Gene family

MIPF0000001; mir-17

Literature search

49 open access papers mention rno-mir-20a
(169 sentences)

Stem-loop

        ucu    c   -a       ua        g   u   u 
5' cagcu   guag acu  aagugcu  uagugcag uag gug c
   |||||   |||| |||  |||||||  |||||||| ||| |||  
3' gucga   cguc uga  uucacga  auuacguc auc uac g
        --c    a   ca       gc        -   -   u 

Deep sequencing

68655 reads, 30.6 reads per million, 493 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr15: 100180334-100180418 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-20a

• rno-mir-17-1: chr15: 100179879-100179962 [+]
• rno-mir-18a: chr15: 100180015-100180110 [+]
• rno-mir-19a: chr15: 100180162-100180243 [+]
• rno-mir-20a: chr15: 100180334-100180418 [+]
• rno-mir-19b-1: chr15: 100180464-100180550 [+]
• rno-mir-92a-1: chr15: 100180586-100180663 [+]

Database links

• EntrezGene:Mir20a
• miRBase Tracker:MI0000638

Mature sequence rno-miR-20a-5p

• Accession: MIMAT0000602
• Previous IDs: rno-miR-20;rno-miR-20a
• Sequence: 16 - uaaagugcuuauagugcagguag - 38
• Deep sequencing: 68169 reads, 492 experiments
• Evidence: experimental; cloned [1-3], SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-20a-5p
  • miRDB:rno-miR-20a-5p
  • microrna.org:rno-miR-20a-5p

Mature sequence rno-miR-20a-3p

• Accession: MIMAT0000603
• Previous IDs: rno-miR-20*;rno-miR-20a*
• Sequence: 52 - acugcauuacgagcacuuaca - 72
• Deep sequencing: 483 reads, 222 experiments
• Evidence: experimental; cloned [1], SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-20a-3p
  • miRDB:rno-miR-20a-3p
  • microrna.org:rno-miR-20a-3p

References

1. PMID:14691248 "Identification of many microRNAs that copurify with polyribosomes in mammalian neurons" Kim J, Krichevsky A, Grad Y, Hayes GD, Kosik KS, Church GM, Ruvkun G Proc Natl Acad Sci U S A. 101:360-365(2004).
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).