1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' | 9 5' 3' |
gtaattgctcattttgtcctaaacctgcgttgttttaggtgtttaatttgaggcatgtggcaaccatccaattatcttgacatttcatttcgtggaaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAGCAATTTACTCCAAGATGGTTTAACAGGACCGATGAAATCGCCCCTACA
species | Oryza sativa |
transcript | LOC_Os03g16690.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|29618293|gb|CB623305.1|CB623305
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|87019938|gb|CI299336.1|CI299336
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|33686825|gb|CF315064.1|CF315064
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|58671178|gb|CK059864.1|CK059864
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|88214603|gb|CI214452.1|CI214452
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: ATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|29682877|gb|CB679152.1|CB679152
genomic: ATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|86884608|gb|CI312987.1|CI312987
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTTAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|86593972|gb|CI260201.1|CI260201
genomic: TCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|88834258|gb|CI000622.1|CI000622
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|38471242|gb|CF955373.1|CF955373
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTGCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|13420867|gb|AU174957.1|AU174957
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: GACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|55409301|gb|CV721677.1|CV721677
genomic: GACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|88990539|gb|CI107926.1|CI107926
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: CATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|86433684|gb|CI094027.1|CI094027
genomic: CATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAEST: gi|396941588|gb|HO188245.1|HO188245
genomic: TATGCCCTCGAGAAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
EST: AAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAG GCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
genomic: AAGGGTGACATGTCAAAATCAGGTTCAGAAAAGAGCAGgtaattgctc ... aaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGA
aggcatgtggcaaccatccaattatcttgacatttcatttcgtggaaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAGCAATTTACTCCAAGATGGTTTAACAGGACCGATGAAATCGCCCCTACA
tcttgac putative branch site (score: 106)
ctttc putative PPT
aattatctt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaattgctcattttgtcctaaacctgcgttgttttaggtgtttaatttgaggcatgtggcaaccatccaattatcttgacatttcatttcgtggaaactttcagGCTTGAAGAGCAACAAAGAGCTGAGAAAAGAACACGAGAGGCCAAGGGGGAGCAATTTACTCCAAGATGGTTTAACAGGACCGATGAAATCGCCCCTACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG