Stem-loop sequence dre-mir-9-5

Accession

MI0001884 (change log)

Description

Danio rerio miR-9-5 stem-loop

Gene family

MIPF0000014; mir-9

Literature search

22 open access papers mention dre-mir-9-5
(215 sentences)

Stem-loop

      a  g    g   uc               g     -  au 
5' gga gc aguu uua  uuugguuaucuagcu uauga gu  u
   ||| || |||| |||  ||||||||||||||| ||||| ||  u
3' ccu cg ucaa aau  aagccaauagaucga auacu ca  u
      c  -    a   ga               a     u  cg 

Deep sequencing

50202 reads, 1.6e+03 reads per million, 11 experiments

Confidence

Annotation confidence: high

Feedback: Do you believe this miRNA is real?

Genome context

• Coordinates (GRCz11; GCA_000002035.4): chr5: 48170098-48170184 [-]
• Overlapping transcripts:

  sense

  OTTDART00000022813 ; si:ch211-202e12.3-002; intron 1

  OTTDART00000058609 ; si:ch211-202e12.3-004; intron 1

  OTTDART00000022812 ; si:ch211-202e12.3-001; intron 1

  OTTDART00000023154 ; si:ch211-202e12.3-003; intron 1

  ENSDART00000144252 ; si:ch211-202e12.3-002; intron 1

  ENSDART00000153239 ; si:ch211-202e12.3-004; intron 1

  ENSDART00000140395 ; si:ch211-202e12.3-001; intron 1

  ENSDART00000141802 ; si:ch211-202e12.3-003; intron 1

Database links

• EntrezGene:mir9-5
• EntrezGene:mir9-5
• RNAcentral:URS000075D9C6_7955
• miRBase Tracker:MI0001884

Mature sequence dre-miR-9-5p

• Accession: MIMAT0001769
• Previous IDs: dre-miR-9
• Sequence: 16 - ucuuugguuaucuagcuguauga - 38
• Deep sequencing: 220384 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS00004208C5_7955
• Predicted targets:
  • TargetScanFish:dre-miR-9

Mature sequence dre-miR-9-3p

• Accession: MIMAT0003156
• Previous IDs: dre-miR-9*
• Sequence: 54 - uaaagcuagauaaccgaaagu - 74
• Deep sequencing: 93449 reads, 11 experiments
• Evidence: experimental; array [2], in-situ [2]
• Database links:
  • RNAcentral:URS000034FC86_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).
2. PMID:15919954 "MicroRNA expression in zebrafish embryonic development" Wienholds E, Kloosterman WP, Miska E, Alvarez-Saavedra E, Berezikov E, de Bruijn E, Horvitz HR, Kauppinen S, Plasterk RH Science. 309:310-311(2005).