Skip to main content

Advertisement

Table 1 Summary of overlap between Alt Events and probes by isoform type

From: Comparison of Affymetrix Gene Array with the Exon Array shows potential application for detection of transcript isoform variation

Isoform Type Total Alt Events # of Events Overlapped by Gene Array # of Events Overlapped by Exon Array
Alternative Polyadenylation Site 1,684 41 (2.4%) 229 (13.6%)
Alternative 5' Intron Splice Site 3,634 1,433 (39.4%) 2,088 (57.5%)
Alternative 3' Intron Splice Site 5,332 1,806 (33.9%) 2,558 (48.0%)
Alternative Promoter Site 19,409 7,577 (39.0%) 14,826 (76.4%)
Overlapping Exon 9,876 4,535 (45.9%) 8,149 (82.5%)
Cassette Exon 24,511 16,670 (68.0%) 21,840 (89.1%)
Minor Introns* 182 22 (12.1%) 144 (79.1%)
Retained Intron 5,150 2,095 (40.7%) 4,549 (88.3%)
Strange Intron Ends** 4,281 233 (5.4%) 1,246 (29.1%)
Total 74,059 34,412 (46%) 55,629 (75%)
  1. * Intron with AT/AC ends rather than the usual GT/AG
  2. ** Intron with ends that are not GT/AG, GC/AG or AT/AC
  3. The total number of Alt Events sharing overlap with Gene Array and Exon Array platforms is summarized in the table above. Results are categorized based on isoform type. Definitions of each isoform category can be found in the Alt Events track description page in the UCSC Genome Browser http://genome.ucsc.edu/cgi-bin/hgTrackUi?db=hg18&g=knownAlt. Note that some Alt Events overlap each other and are considered independently.