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' |
gtgatcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGAACCTTGGCTACGCTGGTGGTGAAGCAGTCTCAACTATGGTCAAAGCAT
species | Oryza sativa |
transcript | LOC_Os01g65090.2 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|428197|gb|D24345.1|D24345
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGNAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|29644554|gb|CB649561.1|CB649561
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|29644410|gb|CB649417.1|CB649417
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|86849106|gb|CI295847.1|CI295847
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|29683532|gb|CB679807.1|CB679807
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|87016653|gb|CI275655.1|CI275655
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGEST: gi|29679352|gb|CB675627.1|CB675627
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
EST: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAG TTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
genomic: TTGCAGCCCCAAAACATTTTGTTGCAGCCTGTGGAAAGATCCAAAGCCAGgtgatcactt ... tttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTG
cttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGAACCTTGGCTACGCTGGTGGTGAAGCAGTCTCAACTATGGTCAAAGCAT
tcctcac putative branch site (score: 2)
ctttgttt putative PPT
tttgttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgatcacttcttgttcatgcaactataaatgtgtagtgttgagtgatgtagtcatgtgatactgcattatcatagaactatcactttgttaattctagaaaacttcacgtgccgcaacattatctgttctagcccccttttccttctgcaaactctgatttgcagttgtcctcacaccaacgctttgtttgctgcagTTTACTTCAGGTGCTAGTAGCATATCACAGAAGGCAGGGCTCGCTGCTTTGAACCTTGGCTACGCTGGTGGTGAAGCAGTCTCAACTATGGTCAAAGCAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC