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Danio rerio

ABSTRACT: RNA-seq of zebrafish melanoma cells after metastatic dissemination

PROVIDER: PRJNA354577 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5044690.fastq.gz	Fastqsanger.gz
	SRR5044691.fastq.gz	Fastqsanger.gz
	SRR5044682.fastq.gz	Fastqsanger.gz
	SRR5044692.fastq.gz	Fastqsanger.gz
	SRR5044683.fastq.gz	Fastqsanger.gz

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Project description:The exon junction complex (EJC) is composed of three core proteins Rbm8a, Magoh and Eif4a3 and is thought to play a role in several post-transcriptional processes. In this study we focus on understanding the role of EJC in zebrafish development. We identified transcriptome-wide binding sites of EJC in zebrafish via RNA:protein immunoprecipitation followed by deep sequencing (RIP-Seq). We find that, as in human cells, zebrafish EJC is deposited about 24 nts upstream of exon-exon junctions. We also identify transcripts regulated by Rbm8a and Magoh in zebrafish embryos using whole embryo RNA-seq from rbm8a mutant, magoh mutant and wild-type sibling embryos. This study shows that nonsense mediated mRNA decay is dysregulated in zebrafish EJC mutants.

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