1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' |
...cttgatgctgttaaattacatatatataatgcgttgacgatgctttgatcttcagatagcatgtgagaaaatattttcatttggctgttcccttccccagAATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTTGATGGAATTTACAAGAAGTACTGCATACTAGACAGTGACGTGATGAATG
species | Oryza sativa |
transcript | LOC_Os02g44890.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: TGCGGCTCCTTGCAAGAAGGCAGGAAACAGAAAATATGGCACTCATAAAG AATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTTEST: gi|33691935|gb|CF320174.1|CF320174
genomic: TGCGGCTCCTTGCAAGAAGGCAGGAAACAGAAAATATGGCACTCATAAAGgtaagttgga ... ccttccccagAATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTT
EST: TGCGGCTCCTTGCAAGAAGGCAGGAAACAGAAAATATGGCACTCATAAAG AATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTTEST: gi|86430001|gb|CI082424.1|CI082424
genomic: TGCGGCTCCTTGCAAGAAGGCAGGAAACAGAAAATATGGCACTCATAAAGgtaagttgga ... ccttccccagAATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTT
EST: GCACTCATAAAG AATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTT
genomic: GCACTCATAAAGgtaagttgga ... ccttccccagAATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTT
tgatcttcagatagcatgtgagaaaatattttcatttggctgttcccttccccagAATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTTGATGGAATTTACAAGAAGTACTGCATACTAGACAGTGACGTGATGAATG
ctttgat putative branch site (score: 5)
ctgttcccttcccc putative PPT
agaaaatattttcatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| cttgatgctgttaaattacatatatataatgcgttgacgatgctttgatcttcagatagcatgtgagaaaatattttcatttggctgttcccttccccagAATCTATTGGAAGAGGACAAGGACCTAGCAAAGCAGCAACAGGAGTTACTTGATGGAATTTACAAGAAGTACTGCATACTAGACAGTGACGTGATGAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT