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Screen - Version 3.4 Web-Interface
To compute the HBond score of a 5’ splice site, based upon its capability to form H-bonds with U1 snRNA, you need to enter at least one canonic 5’ splice site sequence, starting from exon position -3, through exon position -1, and intron position +1 to intron position +8, i.e. 11 nucleotides containing “GT” in positions +1 and +2, like e.g. CAGGTAAGTAT. Upper- and lowercase are equally admitted. The output provides HBond scores and H-bond pattern for the 5’ ss.
If you enter a genomic sequence (>11 nt), all possible canonic splice sites containing “GT” in positions +1 and +2 are screened and the respective HBond scores and H-Bond patterns are displayed. Note that the output data can be copied into e.g. Microsoft Excel using "Edit - Paste Special (Formatted Text)".
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