Splicing repression allows the gradual emergence of new Alu-exons in primate evolution.

Differentially expressed transcripts are enriched for Alu-exons and there is an overall trend for down-regulation of cytoplasmic mRNA expression of genes that harbour these exons, which is validated for a subset of genes using RT-(q)PCR assays.

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In all tissues, Alu-exon genes with an alternative or a constitutive Alu-exon showed a clear trend to be less expressed than genes without Alu-exons, and this was most pronounced for genes containing a constitutive Alu-exon ( Figure 1A and Figure 1—figure supplement 1 ).

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