Stem-loop sequence dre-mir-199-1

Accession

MI0001373 (change log)

Previous IDs

dre-mir-199a-1

Description

Danio rerio miR-199-1 stem-loop

Gene family

MIPF0000040; mir-199

Literature search

10 open access papers mention dre-mir-199-1
(17 sentences)

Stem-loop

   u  -   u c   auc       u        c   ---    ga 
5'  cc ugc c guc   ccagugu cagacuac ugu   ucag  u
    || ||| | |||   ||||||| |||||||| |||   ||||  c
3'  gg acg g cag   gguuaca gucugaug aca   gguc  a
   -  u   u u   auu       c        -   ugu    au 

Deep sequencing

110294 reads, 7.55e+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): chr20: 14875460-14875546 [+]
• Overlapping transcripts:

  antisense

  OTTDART00000004875 ; dnm3-001; intron 15

  ENSDART00000047039 ; dnm3-201; intron 14

  ENSDART00000152641 ; dnm3-001; intron 15

Clustered miRNAs

< 10kb from dre-mir-199-1

• dre-mir-199-1: chr20: 14875460-14875546 [+]
• dre-mir-214: chr20: 14877639-14877738 [+]

Database links

• EntrezGene:mir199-1
• EntrezGene:mir199-1
• RNAcentral:URS000075D866_7955
• miRBase Tracker:MI0001373

Mature sequence dre-miR-199-5p

• Accession: MIMAT0001277
• Previous IDs: dre-miR-199a;dre-miR-199
• Sequence: 15 - cccaguguucagacuaccuguuc - 37
• Deep sequencing: 131161 reads, 11 experiments
• Evidence: experimental; cloned [1-2]
• Database links:
  • RNAcentral:URS0000554A4F_7955
• Predicted targets:
  • TargetScanFish:dre-miR-199

Mature sequence dre-miR-199-3p

• Accession: MIMAT0003155
• Previous IDs: dre-miR-199*
• Sequence: 53 - uacaguagucugcacauugguu - 74
• Deep sequencing: 133080 reads, 11 experiments
• Evidence: experimental; array [3], in-situ [3]
• Database links:
  • RNAcentral:URS000028C76E_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: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).