Database of human alternative 5' and 3' splice sites

To determine the impact of the intron-exon architecture and splice site strength on splice site selection, we created a database of alternative splice sites (ALTssDB) using the Human Exon Splicing Event Database HEXEvent, the Intron DB, and GeneBase. MaxEntScan, a computational tool was used to assign splice site scores. To minimize variability, we focused on competing alternative 5′ or 3′ splice site pairs of internal exons with only one alternative splice pattern. Thus, two alternative 5′ splice sites compete for a common 3′ss, or two alternative 3′ splice sites compete for a common 5′ss. As a result, ALTssDB reports the location of the major splice site and its competing alternative 3′ or 5′ splice site, corresponding exon sizes, usage levels, splice site scores and flanking intron lengths.

为探究内含子-外显子结构（intron-exon architecture）与剪接位点强度对剪接位点选择的影响，我们依托人类外显子剪接事件数据库（Human Exon Splicing Event Database, HEXEvent）、Intron DB以及GeneBase，构建了可变剪接位点数据库（alternative splice sites database, ALTssDB）。我们使用计算工具MaxEntScan来分配剪接位点得分。为最小化实验变异，我们仅选取仅存在单一可变剪接模式的内部外显子的竞争性可变5′剪接位点对或3′剪接位点对：具体而言，两个可变5′剪接位点竞争同一个3′剪接位点（3' splice site），或是两个可变3′剪接位点竞争同一个5′剪接位点（5' splice site）。最终，ALTssDB收录了主要剪接位点及其竞争性可变3′或5′剪接位点的位置、对应外显子长度、剪接位点使用水平、剪接位点得分以及侧翼内含子长度。