Stem-loop sequence dre-mir-125c

Accession

MI0001978 (change log)

Description

Danio rerio miR-125c stem-loop

Gene family

MIPF0000033; mir-10

Literature search

11 open access papers mention dre-mir-125c
(117 sentences)

Stem-loop

          u     uc  ug  ac   a        ----  uc 
5' gcucucc ccugu  cc  ag  ccu acucguga    gg  u
   ||||||| |||||  ||  ||  ||| ||||||||    ||  u
3' cgggagg ggaca  gg  uc  gga ugggcacu    cc  u
          u     ga  gu  ga   c        aaaa  uu 

Deep sequencing

20420 reads, 1.32e+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): chr15: 29800968-29801052 [+]
• Overlapping transcripts:

  sense

  OTTDART00000057551 ; zgc:153372-001; intron 10

  ENSDART00000099958 ; zgc:153372-001; intron 10

Clustered miRNAs

< 10kb from dre-mir-125c

• dre-mir-99-1: chr15: 29795583-29795666 [+]
• dre-let-7c-1: chr15: 29795823-29795929 [+]
• dre-mir-125c: chr15: 29800968-29801052 [+]

Database links

• EntrezGene:mir125c
• EntrezGene:mir125c
• RNAcentral:URS000075DDAE_7955
• miRBase Tracker:MI0001978

Mature sequence dre-miR-125c-5p

• Accession: MIMAT0001822
• Previous IDs: dre-miR-125c
• Sequence: 14 - ucccugagacccuaacucguga - 35
• Deep sequencing: 20256 reads, 11 experiments
• Evidence: experimental; cloned [1]
• Database links:
  • RNAcentral:URS000075E383_7955
• Predicted targets:
  • TargetScanFish:dre-miR-125c

Mature sequence dre-miR-125c-3p

• Accession: MIMAT0031966
• Sequence: 53 - acgggucaggagcuugggagac - 74
• Deep sequencing: 164 reads, 10 experiments
• Evidence: not experimental
• Database links:
  • RNAcentral:URS0000775677_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).