Stem-loop sequence rno-mir-29b-1

Accession

MI0000864 (change log)

Description

Rattus norvegicus miR-29b-1 stem-loop

Gene family

MIPF0000009; mir-29

Literature search

123 open access papers mention rno-mir-29b-1
(1107 sentences)

Stem-loop

   -cu       -          u      gu      uuaaa 
5'    ucaggaa gcugguuuca auggug  uuagau     u
      ||||||| |||||||||| ||||||  ||||||     a
3'    gguucuu ugacuaaagu uaccac  gaucug     g
   ggu       g          u      --      uuagu 

Deep sequencing

679929 reads, 445 reads per million, 490 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr4: 58344310-58344390 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from rno-mir-29b-1

• rno-mir-29b-1: chr4: 58344310-58344390 [-]
• rno-mir-3587: chr4: 58344283-58344345 [+]
• rno-mir-29a: chr4: 58343931-58344018 [-]
• rno-mir-3556a: chr4: 58343919-58344036 [+]

Database links

• EntrezGene:Mir29b-1
• miRBase Tracker:MI0000864

Mature sequence rno-miR-29b-1-5p

• Accession: MIMAT0005445
• Previous IDs: rno-miR-29b-1*
• Sequence: 15 - uuucauauggugguuuagauuu - 36
• Deep sequencing: 6302 reads, 396 experiments
• Evidence: experimental; cloned [3], SOLiD [5]
• Predicted targets:
  • TargetScanVert:rno-miR-29b-1-5p
  • miRDB:rno-miR-29b-1-5p
  • microrna.org:rno-miR-29b-1-5p

Mature sequence rno-miR-29b-3p

• Accession: MIMAT0000801
• Previous IDs: rno-miR-29b
• Sequence: 51 - uagcaccauuugaaaucaguguu - 73
• Deep sequencing: 2019100 reads, 495 experiments
• Evidence: experimental; cloned [1-4], SOLiD [5]

References

1. PMID:15345052 "Microarray analysis of microRNA expression in the developing mammalian brain" Miska EA, Alvarez-Saavedra E, Townsend M, Yoshii A, Sestan N, Rakic P, Constantine-Paton M, Horvitz HR Genome Biol. 5:R68(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:17805466 "Cloning and identification of novel microRNAs from rat hippocampus" He X, Zhang Q, Liu Y, Pan X Acta Biochim Biophys Sin (Shanghai). 39:708-714(2007).
5. 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).