Stem-loop sequence gga-mir-454

Accession

MI0006984 (change log)

Description

Gallus gallus miR-454 stem-loop

Gene family

MIPF0000174; mir-454

Literature search

4 open access papers mention gga-mir-454
(9 sentences)

Stem-loop

   ccauuau   -gcuuccuaa       -  u          ---         -  -       ug 
5'        cca          ccuuaag ga gagacccuau   caauauugc cu cugcuuu  u
          |||          ||||||| || ||||||||||   ||||||||| || |||||||  g
3'        ggu          ggaguuu cu uucugggaua   guuauaacg ga gauggga  c
   -------   acuucuuaug       u  u          uuc         u  u       cu 

Deep sequencing

5001 reads, 0 reads per million, 5 experiments

Confidence

Annotation confidence: not enough data

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Genome context

• Coordinates (Gallus_gallus-5.0; GCA_000002315.3): chr15: 400264-400384 [-]
• Overlapping transcripts:

  intergenic

Clustered miRNAs

< 10kb from gga-mir-454

• gga-mir-130a: chr15: 407968-408050 [-]
• gga-mir-301a: chr15: 406743-406835 [-]
• gga-mir-454: chr15: 400264-400384 [-]
• gga-mir-130b: chr15: 399151-399227 [-]

Database links

• EntrezGene:MIR454
• RNAcentral:URS000075DDB2_9031
• miRBase Tracker:MI0006984

Mature sequence gga-miR-454-5p

• Accession: MIMAT0007291
• Previous IDs: gga-miR-454*
• Sequence: 14 - uccuaaccuuaaggaugag - 32
• Deep sequencing: 10 reads, 4 experiments
• Evidence: experimental; cloned [1]
• Predicted targets:
  • TargetScanVert:gga-miR-454-5p
  • miRDB:gga-miR-454-5p

Mature sequence gga-miR-454-3p

• Accession: MIMAT0007292
• Previous IDs: gga-miR-454
• Sequence: 72 - uagugcaauauugcuuauagggu - 94
• Deep sequencing: 4982 reads, 5 experiments
• Evidence: experimental; cloned [1-2], Illumina [3]
• Database links:
  • RNAcentral:URS00004F77ED_9031
• Predicted targets:
  • TargetScanVert:gga-miR-454-3p
  • miRDB:gga-miR-454-3p

References

1. PMID:18463306 "Conservation of small RNA pathways in platypus" Murchison EP, Kheradpour P, Sachidanandam R, Smith C, Hodges E, Xuan Z, Kellis M, Grutzner F, Stark A, Hannon GJ Genome Res. 18:995-1004(2008).
2. PMID:18256158 "MicroRNA profile of Marek's disease virus-transformed T-cell line MSB-1: predominance of virus-encoded microRNAs" Yao Y, Zhao Y, Xu H, Smith LP, Lawrie CH, Watson M, Nair V J Virol. 82:4007-4015(2008).
3. PMID:18469162 "A microRNA catalog of the developing chicken embryo identified by a deep sequencing approach" Glazov EA, Cottee PA, Barris WC, Moore RJ, Dalrymple BP, Tizard ML Genome Res. 18:957-964(2008).