Stem-loop sequence rno-mir-136

Accession

MI0000909 (change log)

Description

Rattus norvegicus miR-136 stem-loop

Gene family

MIPF0000099; mir-136

Literature search

8 open access papers mention rno-mir-136
(14 sentences)

Stem-loop

   u        g        c     uuu          uuc 
5'  gagcccuc gaggacuc auuug   ugaugaugga   u
    |||||||| |||||||| |||||   ||||||||||   u
3'  cuugggag cuucugag uaaac   gcuacuaccu   a
   u        a        -     ucu          cga 

Deep sequencing

908403 reads, 539 reads per million, 477 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133716761-133716842 [+]
• Overlapping transcripts:

  antisense

  ENSRNOT00000072399 ; rno-mir-3543-201; exon 1

Clustered miRNAs

< 10kb from rno-mir-136

• rno-mir-431: chr6: 133711425-133711538 [+]
• rno-mir-433: chr6: 133712334-133712426 [+]
• rno-mir-127: chr6: 133713430-133713526 [+]
• rno-mir-3543-1: chr6: 133715345-133715459 [-]
• rno-mir-434-1: chr6: 133715378-133715458 [+]
• rno-mir-3543-2: chr6: 133716215-133716329 [-]
• rno-mir-434-2: chr6: 133716248-133716328 [+]
• rno-mir-136: chr6: 133716761-133716842 [+]

Database links

• EntrezGene:Mir136
• miRBase Tracker:MI0000909

Mature sequence rno-miR-136-5p

• Accession: MIMAT0000842
• Previous IDs: rno-miR-136
• Sequence: 15 - acuccauuuguuuugaugaugga - 37
• Deep sequencing: 207249 reads, 447 experiments
• Evidence: experimental; cloned [1-2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-136-5p
  • miRDB:rno-miR-136-5p
  • microrna.org:rno-miR-136-5p

Mature sequence rno-miR-136-3p

• Accession: MIMAT0004733
• Previous IDs: rno-miR-136*
• Sequence: 49 - caucaucgucucaaaugagucu - 70
• Deep sequencing: 701148 reads, 468 experiments
• Evidence: experimental; cloned [2], SOLiD [3]
• Predicted targets:
  • TargetScanVert:rno-miR-136-3p
  • miRDB:rno-miR-136-3p
  • microrna.org:rno-miR-136-3p

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: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).