TY - JOUR
T1 - Comparative Analysis Identifies Exonic Splicing Regulatory Sequences-The Complex Definition of Enhancers and Silencers
AU - Goren, Amir
AU - Ram, Oren
AU - Amit, Maayan
AU - Keren, Hadas
AU - Lev-Maor, Galit
AU - Vig, Ida
AU - Pupko, Tal
AU - Ast, Gil
N1 - Funding Information:
This effort was supported by the University of Kentucky, Lexington, Kentucky, through internal funding. The authors wish to thank the 3M Industrial Products Division, St. Paul, Minnesota, for their donation of FC-72. The authors also acknowledge the efforts of Donald Brigner whose patience and diligence allowed much of the data to be obtained.
PY - 2006/6/23
Y1 - 2006/6/23
N2 - Exonic splicing regulatory sequences (ESRs) are cis-acting factor binding sites that regulate constitutive and alternative splicing. A computational method based on the conservation level of wobble positions and the overabundance of sequence motifs between 46,103 human and mouse orthologous exons was developed, identifying 285 putative ESRs. Alternatively spliced exons that are either short in length or contain weak splice sites show the highest conservation level of those ESRs, especially toward the edges of exons. ESRs that are abundant in those subgroups show a different distribution between constitutively and alternatively spliced exons. Representatives of these ESRs and two SR protein binding sites were shown, experimentally, to display variable regulatory effects on alternative splicing, depending on their relative locations in the exon. This finding signifies the delicate positional effect of ESRs on alternative splicing regulation.
AB - Exonic splicing regulatory sequences (ESRs) are cis-acting factor binding sites that regulate constitutive and alternative splicing. A computational method based on the conservation level of wobble positions and the overabundance of sequence motifs between 46,103 human and mouse orthologous exons was developed, identifying 285 putative ESRs. Alternatively spliced exons that are either short in length or contain weak splice sites show the highest conservation level of those ESRs, especially toward the edges of exons. ESRs that are abundant in those subgroups show a different distribution between constitutively and alternatively spliced exons. Representatives of these ESRs and two SR protein binding sites were shown, experimentally, to display variable regulatory effects on alternative splicing, depending on their relative locations in the exon. This finding signifies the delicate positional effect of ESRs on alternative splicing regulation.
KW - RNA
UR - https://www.scopus.com/pages/publications/33745207758
U2 - 10.1016/j.molcel.2006.05.008
DO - 10.1016/j.molcel.2006.05.008
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AN - SCOPUS:33745207758
SN - 1097-2765
VL - 22
SP - 769
EP - 781
JO - Molecular Cell
JF - Molecular Cell
IS - 6
ER -