Stem-loop sequence dre-mir-125b-1

Accession

MI0001975 (change log)

Description

Danio rerio miR-125b-1 stem-loop

Gene family

MIPF0000033; mir-10

Literature search

24 open access papers mention dre-mir-125b-1
(186 sentences)

Stem-loop

   u    uugc g        -     cu   aau ug      a  -a    u    c           -    uuu 
5'  ucug    a guuggcgg uuggu  gca   g  ccucuc ca  uccc gaga ccuaacuugug acgu   c
    ||||    | |||||||| |||||  |||   |  |||||| ||  |||| |||| ||||||||||| ||||   c
3'  aggc    u cggccgcc gacua  ugu   c  ggggag gu  aggg uucu ggauugggcac ugua   u
   a    ---- g        c     -c   -cu gu      a  cg    -    u           g    uug 

Deep sequencing

21710 reads, 1.35e+03 reads per million, 11 experiments

Confidence

Annotation confidence: high

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Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr15: 21447656-21447800 [+]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from dre-mir-125b-1

• dre-let-7a-2: chr15: 21437876-21437959 [+]
• dre-mir-125b-1: chr15: 21447656-21447800 [+]

Database links

• EntrezGene:mir125b-1
• EntrezGene:mir125b-1
• RNAcentral:URS000075E7D8_7955
• miRBase Tracker:MI0001975

Mature sequence dre-miR-125b-5p

• Accession: MIMAT0001821
• Previous IDs: dre-miR-125b
• Sequence: 46 - ucccugagacccuaacuuguga - 67
• Deep sequencing: 62216 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS0000209905_7955
• Predicted targets:
  • TargetScanFish:dre-miR-125b

Mature sequence dre-miR-125b-1-3p

• Accession: MIMAT0031963
• Sequence: 86 - acggguuagguucuugggagcu - 107
• Deep sequencing: 961 reads, 11 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000777822_7955

References

1. PMID:15937218 "The developmental miRNA profiles of zebrafish as determined by small RNA cloning" Chen PY, Manninga H, Slanchev K, Chien M, Russo JJ, Ju J, Sheridan R, John B, Marks DS, Gaidatzis D, Sander C, Zavolan M, Tuschl T Genes Dev. 19:1288-1293(2005).