splicing event tables added

sql/patch_54_55_c.sql

+# patch_54_55_c.sql
+#
+# title: Add alternative splicing event tables
+#
+# description:
+# Add alternative splicing event tables for annotation
+
+CREATE TABLE splicing_event (
+
+  splicing_event_id       INT(10)  UNSIGNED NOT NULL AUTO_INCREMENT,
+  name                    VARCHAR(134),
+  gene_id                 INT(10) UNSIGNED NOT NULL,
+  seq_region_id           INT(10) UNSIGNED NOT NULL,
+  seq_region_start        INT(10) UNSIGNED NOT NULL,
+  seq_region_end          INT(10) UNSIGNED NOT NULL,
+  seq_region_strand       TINYINT(2) NOT NULL,
+  type	                  ENUM('CNE','CE','AFE','A5SS','A3SS','MXE','IR','II','EI', 'AT', 'ALE', 'AI'),
+  PRIMARY KEY (splicing_event_id),
+  KEY gene_idx (gene_id),
+  KEY seq_region_idx (seq_region_id, seq_region_start)
+
+)  COLLATE=latin1_swedish_ci TYPE=MyISAM;
+
+
+CREATE TABLE splicing_event_feature (
+
+  splicing_event_feature_id INT(10)  UNSIGNED NOT NULL,
+  splicing_event_id         INT(10)  UNSIGNED NOT NULL,
+  exon_id                   INT(10)  UNSIGNED NOT NULL,
+  transcript_id             INT(10)  UNSIGNED NOT NULL,
+  feature_order             INT(10)  UNSIGNED NOT NULL,
+  transcript_association    INT(10)  UNSIGNED NOT NULL,
+  type                      ENUM('constitutive_exon','exon','flanking_exon'),
+  start                     INT(10)  UNSIGNED NOT NULL,
+  end                       INT(10)  UNSIGNED NOT NULL,
+
+  PRIMARY KEY (splicing_event_feature_id,exon_id,transcript_id),
+  KEY se_idx (splicing_event_id)
+
+) COLLATE=latin1_swedish_ci TYPE=MyISAM;
+
+
+
+CREATE TABLE splicing_transcript_pair (
+
+
+  splicing_transcript_pair_id INT(10)  UNSIGNED NOT NULL,
+  splicing_event_id           INT(10)  UNSIGNED NOT NULL, 
+  transcript_id_1             INT(10)  UNSIGNED NOT NULL,
+  transcript_id_2             INT(10)  UNSIGNED NOT NULL,
+
+  PRIMARY KEY (splicing_transcript_pair_id),
+  KEY se_idx (splicing_event_id)
+  
+
+) COLLATE=latin1_swedish_ci TYPE=MyISAM;
+
+# patch identifier
+INSERT INTO meta (species_id, meta_key, meta_value) VALUES (NULL, 'patch', 'patch_54_55_c.sql|add_splicing_event_tables');