1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' |
gtacttcttcgcaaccatttaatctacttgtagtgttgcttaaatatctttgtttcatgtagtgaaatttattttcctaaaattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTGAAAGAACTACAAGGGAACATTGGCAACCGTGGTCTTTTTGGCTGAGCT
species | Oryza sativa |
transcript | LOC_Os04g41100.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTTACCAA-CGGTATTTGAAGAEST: gi|29631145|gb|CB636154.1|CB636154
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGT-ACCAAACGGTATTTGAAGA
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|88979130|gb|CI025633.1|CI025633
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|29626550|gb|CB631561.1|CB631561
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: TGAATTAGACAG GCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|44675738|gb|CR289172.1|CR289172
genomic: TGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTATCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|86910572|gb|CI294713.1|CI294713
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|29631235|gb|CB636244.1|CB636244
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|15857726|gb|BI810538.1|BI810538
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAG GCGTACC-AACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTEST: gi|58611941|gb|CK039653.1|CK039653
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATT
EST: AAATCAAAGGATTTCATGCCAACATTCCCGGCTCTAAATGAATTAGACAG GCGTACCAAACGGTATTTGAAGAGTCCTG
genomic: AAATCAAAGGATTTCATGCCAACATTCCCTGCTCTAAATGAATTAGACAGgtacttcttc ... aattccacagGCGTACCAAACGGTATTTGAAGAGTCCTG
ttgcttaaatatctttgtttcatgtagtgaaatttattttcctaaaattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTGAAAGAACTACAAGGGAACATTGGCAACCGTGGTCTTTTTGGCTGAGCT
tcctaaa putative branch site (score: 2)
tgaaatttattttcct 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtacttcttcgcaaccatttaatctacttgtagtgttgcttaaatatctttgtttcatgtagtgaaatttattttcctaaaattccacagGCGTACCAAACGGTATTTGAAGAGTCCTGATCCTCTAGAAGAGCAACGATTGAAAGAACTACAAGGGAACATTGGCAACCGTGGTCTTTTTGGCTGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC