Biased exonization of transposed elements in duplicated genes: A lesson from the TIF-IA gene

Maayan Amit¹ , Noa Sela¹ , Hadas Keren¹ , Ze'ev Melamed¹ , Inna Muler¹^,2^,3 , Noam Shomron⁴ , Shai Izraeli¹^,2^,3 and Gil Ast¹

¹Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel-Aviv University, Ramat Aviv 69978, Israel

²Chaim Sheba Cancer Research Center, Tel Hashomer, Israel

³Pediatric Hemato-Oncology, Sheba Medical Center, Tel Hashomer, Israel

⁴Department of Biology, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, USA

author email corresponding author email

BMC Molecular Biology 2007, 8:109doi:10.1186/1471-2199-8-109


Published:	29 November 2007

Additional files

Additional file 1:

Transposed elements exonizations within duplicated genes in the human genome. A list of transposed elements exonizations within duplicated genes and their genome coordinates.

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Additional file 2:

Indications of exonization only from locus 21. Alignment of EST/cDNA with the human genome using UCSC Genome Browser reveals alternative L2-AExs between exon 1 and 2. The L2-AExs' are marked with red circles. Exons' numbers are indicated on the bottom. Seven out of the 19 ESTs that cover that locus contain an L2-AEx, of which 5 were originated from cancerous sources (3 from Burkitt's lymphoma, 1 from neuroblastoma cell line, and 1 from poorly differentiated adenocarcenoma). The rest of the Alu-containing spliced isoforms originated from reproductive organs (testis and uterus). The alignment indicates that the L2-AEx is also alternatively 5' spliced.

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Additional file 3:

The WT TIF-IA protein is synthesized in cells with and without the exonization. Total protein was extracted from the indicated cells and analyzed by Western blotting using polyclonal rabbit anti-TIF-IA serum (kindly gifted from the Grummt's lab) at a 1/10,000 dilution. 293T and U2OS are human cell lines, and 3T3 is a murine cell line.

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