Splicing enhancement in higher eukaryotes has been
linked to SR proteins, to U1 snRNP, and to communication
between splice sites across introns or exons mediated by
protein–protein interactions. It has been previously
shown that, in yeast, communication mediated by RNA–RNA
interactions between the two ends of introns is a basis
for splicing enhancement. We designed experiments of randomization-selection
to isolate splicing enhancers that would work independently
from RNA secondary structures. Surprisingly, one of the
two families of sequences selected was essentially composed
of 5′ splice site variants. We show that this sequence
enhances splicing independently of secondary structure,
is exportable to heterologous contexts, and works in multiple
copies with additive effects. The data argue in favor of
an early role for splicing enhancement, possibly coincident
with commitment complex formation. Genetic compensation
experiments with U1 snRNA mutants suggest that U1 snRNP
binding to noncanonical locations is required for splicing
enhancement.