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Detection of a common chimeric transcript between human chromosomes 7 and 16

Wenwen Fang1, Yong Wei1, Yibin Kang1 and Laura F Landweber2*

Author Affiliations

1 Department of Molecular Biology, Princeton University, Princeton, NJ, 08544, USA

2 Department of Ecology and Evolutionary Biology, Princeton University, Princeton, NJ, 08544, USA

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Biology Direct 2012, 7:49  doi:10.1186/1745-6150-7-49

Published: 29 December 2012

Abstract

Interchromosomal chimeric RNA molecules are often transcription products from genomic rearrangement in cancerous cells. Here we report the computational detection of an interchromosomal RNA fusion between ZC3HAV1L and CHMP1A from RNA-seq data of normal human mammary epithelial cells, and experimental confirmation of the chimeric transcript in multiple human cells and tissues. Our experimental characterization also detected three variants of the ZC3HAV1L-CHMP1A chimeric RNA, suggesting that these genes are involved in complex splicing. The fusion sequence at the novel exon-exon boundary, and the absence of corresponding DNA rearrangement suggest that this chimeric RNA is likely produced by trans-splicing in human cells.

This article was reviewed by Rory Johnson (nominated by Fyodor Kondrashov); Gal Avital and Itai Yanai

Keywords:
Chimeric transcripts; RNA fusion; trans-splicing; Genome rearrangement