Stem-loop sequence eca-mir-409

Accession

MI0012896 (change log)

Description

Equus caballus miR-409 stem-loop

Gene family

MIPF0000018; mir-154

Stem-loop

   u     u  gg   a    ac         -    - auc 
5'  gguac cg  gag gguu  ccgagcaac uuug c   u
    ||||| ||  ||| ||||  ||||||||| |||| |    
3'  cuaug gc  uuc ccaa  ggcucguug aagc g   g
   a     -  uu   c    gu         u    a cag 

Deep sequencing

9593 reads, 550 reads per million, 2 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (EquCab2.0; GCF_000002305.2): chr24: 42935634-42935712 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from eca-mir-409

• eca-mir-485: chr24: 42925986-42926058 [+]
• eca-mir-154a: chr24: 42930163-42930226 [+]
• eca-mir-154b: chr24: 42930413-42930553 [+]
• eca-mir-496: chr24: 42930990-42931092 [+]
• eca-mir-377: chr24: 42932739-42932807 [+]
• eca-mir-541: chr24: 42934714-42934797 [+]
• eca-mir-409: chr24: 42935634-42935712 [+]
• eca-mir-412: chr24: 42935784-42935863 [+]
• eca-mir-369: chr24: 42935933-42936002 [+]
• eca-mir-410: chr24: 42936264-42936337 [+]
• eca-mir-656: chr24: 42937011-42937088 [+]

Database links

• EntrezGene:MIR409
• miRBase Tracker:MI0012896

Mature sequence eca-miR-409-5p

• Accession: MIMAT0013151
• Sequence: 15 - agguuacccgagcaacuuugcau - 37
• Deep sequencing: 466 reads, 1 experiments
• Evidence: not experimental

Mature sequence eca-miR-409-3p

• Accession: MIMAT0013152
• Sequence: 47 - gaauguugcucggugaaccccu - 68
• Deep sequencing: 9122 reads, 1 experiments
• Evidence: not experimental

References

1. PMID:19406225 "In silico detection and characteristics of novel microRNA genes in the Equus caballus genome using an integrated ab initio and comparative genomic approach" Zhou M, Wang Q, Sun J, Li X, Xu L, Yang H, Shi H, Ning S, Chen L, Li Y, He T, Zheng Y Genomics. 94:125-131(2009).