About WesQL Documentation Stored Procedures

Database: dbDrosophilaSplice
Stored Procedure: user_computesplicesiteinfo

Compute Splice Site Information

cDNA Table	Wesleyan Known cDNA	name of table containing descriptions of cDNA transcripts
Intron Table	Wesleyan Known Introns Wesleyan Predicted Introns	name of table containing intron descriptions
Splice Site Table	Wesleyan Known Splice Sites Wesleyan Predicted Splice Sites	name of table containing nucleotide sequences around splice sites
Gene Include Table	None DeGregorio_GenesByDIRG_expression Info_DeGregorio_GenesByDIRG_induced Info_DeGregorio_GenesByDIRG_repressed Info_Irving01_GeneInduced Irving01_GeneByFunction Paraquat_246ESTs Paraquat_Prime Predicted_Genes_Arm4 Subset1_Arm 2L Subset2_Arm 2L Subset1_Arm 2R Subset2_Arm 2R Subset1_Arm 3L Subset2_Arm 3L Subset1_Arm 3R Subset2_Arm 3R Subset1_Arm X Subset2_Arm X	gene list table with genes that will be analyzed
Gene Exclude Table	None DeGregorio_GenesByDIRG_expression Info_DeGregorio_GenesByDIRG_induced Info_DeGregorio_GenesByDIRG_repressed Info_Irving01_GeneInduced Irving01_GeneByFunction Paraquat_246ESTs Paraquat_Prime Predicted_Genes_Arm4 Subset1_Arm 2L Subset2_Arm 2L Subset1_Arm 2R Subset2_Arm 2R Subset1_Arm 3L Subset2_Arm 3L Subset1_Arm 3R Subset2_Arm 3R Subset1_Arm X Subset2_Arm X	gene list table with genes that will not be analyzed
Alternative Splicing	All Spliced Genes Uniquely Spliced Genes	0: no restriction on genes used; 1: use only uniquely spliced genes
Type of Intron	All First Internal Last Single-Unspliced	0: all introns, 1: first introns, 2: internal introns, 3: last introns, 4: single introns
Minimum Splice Element Length		use only cDNA transcripts with each exon and intron having length >= specified value
Minimum Intron Length		smallest length of intron used
Maximum Intron Length		largest length of intron used; 0 specifies no maximum value
Type of Site	Donor Site Acceptor Site Both Sites	'D': donor sites, 'A': acceptor sites, '': both sites
Start Position		first nucleotide position in range -32..32
Finish Position		last nucleotide position in range -32..32

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