Stem-loop sequence dre-mir-10b-1

Accession

MI0001364 (change log)

Previous IDs

dre-mir-10b

Description

Danio rerio miR-10b-1 stem-loop

Gene family

MIPF0000033; mir-10

Literature search

16 open access papers mention dre-mir-10b-1
(189 sentences)

Stem-loop

   gu        a    g     c          ugaaaa 
5'   cuauauau cccu uagaa cgaauuugug      a
     |||||||| |||| ||||| ||||||||||      a
3'   gguauaug gggg aucuu gcuuagacac      u
   cu        a    -     a          uuacaa 

Deep sequencing

511058 reads, 2.97e+04 reads per million, 11 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Comments

The miR-10b sequence described in [1] is offset by 2 nt with respect to that cloned in mouse (MI0000221).

Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr9: 1952956-1953033 [-]
• Overlapping transcripts:

  sense

  OTTDART00000047316 ; hoxd3a-002; intron 1

  OTTDART00000047317 ; si:rp71-78h1.11-001; exon 2

  ENSDART00000138730 ; hoxd3a-002; intron 1

  ENSDART00000140438 ; si:rp71-78h1.11-001; exon 2

Database links

• EntrezGene:mir10b-1
• EntrezGene:mir10b-1
• RNAcentral:URS000075DE02_7955
• miRBase Tracker:MI0001364

Mature sequence dre-miR-10b-5p

• Accession: MIMAT0001268
• Previous IDs: dre-miR-10b
• Sequence: 10 - uacccuguagaaccgaauuugug - 32
• Deep sequencing: 1017976 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS000058760A_7955
• Predicted targets:
  • TargetScanFish:dre-miR-10b

Mature sequence dre-miR-10b-3p

• Accession: MIMAT0031919
• Sequence: 49 - acagauucgauucuaggggagu - 70
• Deep sequencing: 1916 reads, 11 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS00007673C9_7955

References

1. PMID:12624257 "Vertebrate microRNA genes" Lim LP, Glasner ME, Yekta S, Burge CB, Bartel DP Science. 299:1540(2003).
2. 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).
3. PMID:16736008 "The zebrafish hoxDb cluster has been reduced to a single microRNA" Woltering JM, Durston AJ Nat Genet. 38:601-602(2006).