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gtaacggatcaaacatttcctcttcgaactaacctaccatatactgcagtgcaatgcgatgaaatttgtattttgaccttcctgcggttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGGACCGCTGCTCAGTTTGTTGATGAACAGAGTGGTTTCCAGAGGCTATCCA
species | Oryza sativa |
transcript | LOC_Os04g52200.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
EST: AGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTG GTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGGEST: gi|88845260|gb|CI084185.1|CI084185
genomic: AGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatc ... ttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
EST: AGAACGCTCTCCAAGCACTTGCGAGCACTTATCTCTACGGGCGACATTTG GTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGGEST: gi|41882688|gb|BX928045.1|BX928045
genomic: AGAACGCTCTCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatc ... ttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
EST: GAACGCTCTCCCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTG GTGATCGACCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
genomic: GAACGCTCT-CCAAGCACTTGCGAGCACTCATCTCTACGGGCGACATTTGgtaacggatc ... ttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGG
actgcagtgcaatgcgatgaaatttgtattttgaccttcctgcggttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGGACCGCTGCTCAGTTTGTTGATGAACAGAGTGGTTTCCAGAGGCTATCCA
ttttgac putative branch site (score: 3)
atgaaatttgtatttt TA-rich tract
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaacggatcaaacatttcctcttcgaactaacctaccatatactgcagtgcaatgcgatgaaatttgtattttgaccttcctgcggttgcattcagGTGATCGAGCGAGCTAAGGAAGGAGAGACTCTTGAAGAACTACGAGCGAGGACCGCTGCTCAGTTTGTTGATGAACAGAGTGGTTTCCAGAGGCTATCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT