Stem-loop sequence rno-mir-381

Accession

MI0003546 (change log)

Description

Rattus norvegicus miR-381 stem-loop

Gene family

MIPF0000018; mir-154

Literature search

13 open access papers mention rno-mir-381
(91 sentences)

Stem-loop

     c   g        u        --g   u 
5' ag gag uugcccuu guauauuc   guu a
   || ||| |||||||| ||||||||   |||  
3' uc cuc aacgggaa cauauagg   cag u
     u   g        -        gua   u 

Deep sequencing

80872 reads, 50.9 reads per million, 430 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (Rnor_6.0; GCA_000001895.4): chr6: 133876615-133876675 [+]
• Overlapping transcripts:

  sense

  ENSRNOT00000053616 ; Mir381-201; exon 1

Clustered miRNAs

< 10kb from rno-mir-381

• rno-mir-543: chr6: 133866660-133866739 [+]
• rno-mir-495: chr6: 133868288-133868367 [+]
• rno-mir-667: chr6: 133869570-133869661 [+]
• rno-mir-376c: chr6: 133872439-133872522 [+]
• rno-mir-376b: chr6: 133873095-133873180 [+]
• rno-mir-3595: chr6: 133873587-133873706 [-]
• rno-mir-376a: chr6: 133873605-133873686 [+]
• rno-mir-300: chr6: 133874152-133874230 [+]
• rno-mir-381: chr6: 133876615-133876675 [+]
• rno-mir-487b: chr6: 133877124-133877205 [+]
• rno-mir-3576: chr6: 133877812-133877926 [-]
• rno-mir-539: chr6: 133877832-133877907 [+]
• rno-mir-6331: chr6: 133878578-133878700 [+]
• rno-mir-544: chr6: 133879169-133879246 [+]
• rno-mir-3592: chr6: 133884161-133884276 [-]
• rno-mir-382: chr6: 133884178-133884257 [+]
• rno-mir-134: chr6: 133884547-133884619 [+]
• rno-mir-668: chr6: 133885141-133885208 [+]
• rno-mir-485: chr6: 133885299-133885377 [+]

Database links

• EntrezGene:Mir381
• miRBase Tracker:MI0003546

Mature sequence rno-miR-381-5p

• Accession: MIMAT0017220
• Previous IDs: rno-miR-381*
• Sequence: 1 - agcgagguugcccuuuguauau - 22
• Deep sequencing: 340 reads, 113 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-381-5p
  • miRDB:rno-miR-381-5p

Mature sequence rno-miR-381-3p

• Accession: MIMAT0003199
• Previous IDs: rno-miR-381
• Sequence: 42 - uauacaagggcaagcucu - 59
• Deep sequencing: 80532 reads, 430 experiments
• Evidence: experimental; SOLiD [2]
• Predicted targets:
  • TargetScanVert:rno-miR-381-3p
  • miRDB:rno-miR-381-3p
  • microrna.org:rno-miR-381-3p

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: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).