Stem-loop sequence rno-mir-127

Accession

MI0000899 (change log)

Description

Rattus norvegicus miR-127 stem-loop

Gene family

MIPF0000080; mir-127

Literature search

26 open access papers mention rno-mir-127
(399 sentences)

Stem-loop

   -----uuu   ca   ucu      ugcug         g  c      --  a 
5'         gau  cug   ccagcc     aagcucaga gg ucugau  uc g
           |||  |||   ||||||     ||||||||| || ||||||  || a
3'         cug  ggc   ggucgg     uucgagucu cc aggcua  ag a
   cuacuacu   aa   --u      -----         g  u      cu  a 

Deep sequencing

34496900 reads, 2.32e+04 reads per million, 494 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133713430-133713526 [+]
• Overlapping transcripts:

  antisense

  ENSRNOT00000072399 ; rno-mir-3543-201; exon 5

Clustered miRNAs

< 10kb from rno-mir-127

• rno-mir-337: chr6: 133705920-133706016 [+]
• rno-mir-3544: chr6: 133705932-133706019 [-]
• rno-mir-540: chr6: 133706202-133706285 [+]
• rno-mir-665: chr6: 133706457-133706550 [+]
• 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:Mir127
• miRBase Tracker:MI0000899

Mature sequence rno-miR-127-5p

• Accession: MIMAT0017117
• Previous IDs: rno-miR-127*
• Sequence: 23 - cugaagcucagagggcucugauu - 45
• Deep sequencing: 76424 reads, 367 experiments
• Evidence: experimental; SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-127-5p
  • miRDB:rno-miR-127-5p

Mature sequence rno-miR-127-3p

• Accession: MIMAT0000833
• Previous IDs: rno-miR-127
• Sequence: 57 - ucggauccgucugagcuuggcu - 78
• Deep sequencing: 34420442 reads, 493 experiments
• Evidence: experimental; cloned [1-3], SOLiD [4]
• Predicted targets:
  • TargetScanVert:rno-miR-127-3p
  • miRDB:rno-miR-127-3p
  • microrna.org:rno-miR-127-3p

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: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).
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).