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' | 10 5' 3' | 11 5' 3' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' | 17 5' 3' | 18 5' 3' | 19 5' 3' | 20 5' 3' |
21 5' 3' | 22 5' 3' | 23 5' 3' | 24 5' 3' | 25 5' 3' | 26 5' 3' | 27 5' 3' |
...cacaatattgaataaactttctttatagtagttaccttgttttttttaaacaaacactttggaaaatttctgtggaacttcatcttgttaacacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTTTAGCTCGTGCATTGCTGCGGAGGGCAAAGATACTTGTTCTTGATGAGG
species | Oryza sativa |
transcript | LOC_Os04g52900.1 |
intron # | 24 |
splice site | 3' |
intron type | U2 |
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|58691149|gb|CK079836.1|CK079836
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|58655688|gb|CK044368.1|CK044368
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|33380305|gb|CF195648.1|CF195648
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|58690744|gb|CK079431.1|CK079431
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGEST: gi|25804050|gb|CA760011.1|CA760011
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAG
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|58693939|gb|CK082626.1|CK082626
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTAGTGAGTEST: gi|58658993|gb|CK047673.1|CK047673
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCGTAAGGAGGAATGCTCTGGGACTA-ATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|29671480|gb|CB667755.1|CB667755
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|33380452|gb|CF195795.1|CF195795
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|33380456|gb|CF195799.1|CF195799
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|33380394|gb|CF195737.1|CF195737
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|58588567|gb|CF986875.1|CF986875
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGCCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|58657519|gb|CK046199.1|CK046199
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|112786349|gb|EE590578.1|EE590578
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|66919516|gb|CX106364.1|CX106364
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTEST: gi|84117316|gb|CD151083.1|CD151083
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
EST: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAG GTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
genomic: CTCATCTAAAAGATGTCATAAGGAGGAATGCTCTGGGACTAGATGCTGAGgtacgtagtt ... acacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGT
ttaaacaaacactttggaaaatttctgtggaacttcatcttgttaacacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTTTAGCTCGTGCATTGCTGCGGAGGGCAAAGATACTTGTTCTTGATGAGG
tgttaac putative branch site (score: 2)
aaaatttct 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| cacaatattgaataaactttctttatagtagttaccttgttttttttaaacaaacactttggaaaatttctgtggaacttcatcttgttaacacactcagGTCTCTGAGGCTGGTGAAAATTTTAGCGTTGGACAGCGGCAGCTACTGAGTTTAGCTCGTGCATTGCTGCGGAGGGCAAAGATACTTGTTCTTGATGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
cacaata
- - - - -gaataaa
- - - - - - - - - - - - - - - - - - - - - - - -aaacaaa