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Genome Information for Danio rerio
The production of functional mRNA involves multiple steps including transcription initiation, elongation, and termination. spt5 encodes a conserved essential transcription elongation factor that controls RNAPII processivity in vitro and co-localizes with RNAPII in vivo.
We used microarrays to detail the global expression of gene expression at 24 hours post fertilization in wild-type and Spt5 mutant (fog-sk8) to identify Spt5 transcriptionally dependent genes and affected pathways. Here we report that a mutation in zebrafish spt5, sk8, deregulates <5% of ~10,000 genes examined. These findings reveal a small but diverse set of developmentally regulated genes, whose expression is critically dependent on Spt5-regulated RNAPII stalling in vertebrate development.
Keywords: comparison
Overall design: RNA from zebrafish embryos were harvested at 24 hours post fertilization for hybridization to Affymetrix gene arrays.
Accession | PRJNA111131; GEO: GSE12826 |
Data Type | Transcriptome or Gene expression |
Scope | Multiisolate |
Organism | Danio rerio[Taxonomy ID: 7955] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Actinopterygii; Neopterygii; Teleostei; Ostariophysi; Cypriniformes; Danionidae; Danioninae; Danio; Danio rerio |
Publications | Krishnan K et al., "Identification of Spt5 target genes in zebrafish development reveals its dual activity in vivo.", PLoS One, 2008;3(11):e3621 |
Submission | Registration date: 18-Sep-2008 Nathan Salomonis, Biomedical Informatics, Cincinnati Children's Hospital |
Relevance | Model Organism |
Project Data:
Resource Name | Number of Links |
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Publications |
PubMed | 1 |
PMC | 1 |
Other datasets |
GEO DataSets | 2 |
GEO Data DetailsParameter | Value |
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Data volume, Spots | 93702 |
Data volume, Processed Mbytes | 3 |
Data volume, Supplementary Mbytes | 12 |