Stem-loop sequence oar-mir-3959

Accession

MI0016945 (change log)

Description

Ovis aries miR-3959 stem-loop

Gene family

MIPF0000126; mir-379

Literature search

2 open access papers mention oar-mir-3959
(2 sentences)

Stem-loop

   auggucc     ----a      u    g  u      aga         uug 
5'        gugau     ggggag ggau gu gaucag   acauacauu   u
          |||||     |||||| |||| || ||||||   |||||||||    
3'        cacug     ucccuc ccug ca cuaguc   uguauguag   c
   --cucuu     accua      -    a  c      aac         uaa 

Deep sequencing

6603 reads, 946 reads per million, 13 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (Oar_v4.0; GCA_000298735.2): chr18: 64548402-64548502 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from oar-mir-3959

• oar-mir-376b: chr18: 64538600-64538705 [+]
• oar-mir-376a: chr18: 64538968-64539070 [+]
• oar-mir-1185: chr18: 64540919-64541024 [+]
• oar-mir-3956: chr18: 64541653-64541781 [+]
• oar-mir-381: chr18: 64542580-64542707 [+]
• oar-mir-487b: chr18: 64543093-64543199 [+]
• oar-mir-539: chr18: 64543862-64543971 [+]
• oar-mir-544: chr18: 64545480-64545580 [+]
• oar-mir-655: chr18: 64546384-64546490 [+]
• oar-mir-3959: chr18: 64548402-64548502 [+]
• oar-mir-487a: chr18: 64548818-64548920 [+]
• oar-mir-382: chr18: 64551749-64551874 [+]
• oar-mir-134: chr18: 64552132-64552238 [+]
• oar-mir-668: chr18: 64552683-64552787 [+]
• oar-mir-485: chr18: 64552826-64552936 [+]
• oar-mir-323b: chr18: 64553587-64553696 [+]
• oar-mir-154a: chr18: 64556923-64557027 [+]
• oar-mir-154b: chr18: 64557232-64557340 [+]
• oar-mir-496: chr18: 64557719-64557837 [+]

Database links

• miRBase Tracker:MI0016945

Mature sequence oar-miR-3959-5p

• Accession: MIMAT0019302
• Sequence: 25 - gguugaucagagaacauacauu - 46
• Deep sequencing: 6466 reads, 13 experiments
• Evidence: experimental; Illumina [1]

Mature sequence oar-miR-3959-3p

• Accession: MIMAT0019303
• Sequence: 57 - uguaugucaacugauccacagu - 78
• Deep sequencing: 127 reads, 12 experiments
• Evidence: experimental; Illumina [1]

References

1. PMID:20944086 "Assessing the effect of the CLPG mutation on the microRNA catalog of skeletal muscle using high-throughput sequencing" Caiment F, Charlier C, Hadfield T, Cockett N, Georges M, Baurain D Genome Res. 20:1651-1662(2010).