Identification and Analysis of Alternative Splicing Events Conserved in Human and Mouse
Supplementary Online Webtool

Gene Yeo1,2, Eric Van Nostrand1, Dirk Holste1, Tomaso Poggio2, Christopher B. Burge1,
1 Department of Biology, Massachusetts Institute of Technology
2 Department of Brain and Cognitive Sciences, Massachusetts Institute of Technology

Display ACEScan scores for Ensembl exons

Enter Human gene ensembl id here:

This website provides ACEScan scores for orthologous human-mouse exons filtered by our automated process
(described in Supplementary Online Text).

Available options once a human Ensembl ID is provided:

Display: provides a graphical representation of all ACEScan scored exons in that human Ensembl gene
Properties: provides extended data for all ACEScan scored exons in the provided human Ensembl gene, in tab delimited form: Ensembl link: Direct link to the provided Ensembl ID

Download: ACEScan training data set in FASTA format
Positive samples are labeled SHM, and negative samples are labeled Shm.
Each sample consists of human upstream intron, human exon, human downstream intron (separated by 'X').
This is followed by a space, and the orthologous mouse upstream intron, mouse exon, and mouse downstream intron (separated by 'X').

Limitation with Ensembl genome annotation: we had to rely on orthologous exons being present in the longest transcripts of the human and mouse gene. In consequence, exons have definitely not been scanned. As an mportant update, ACEScan scores for exons from known Genes with a multiz alignment in mouse (increasing the number of ACEScan[+] exons by two-fold) are also available as a custom track at the UCSC Genome Browser.

Please address comments/questions/suggestions regarding this webpage to Gene Yeo.
Copyright © 2004  Last modified: Sun Jul 10 13:18:10 EDT 2005