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' |
...ttgctgggcaatctttagtgactaattttcttgtcatttataattgttatcttggtcacgataacaactactacttacatgttcttgtttccgttctcagCCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCGCCTTGTTCAGCATGCTGTGAGATCTGGATG
species | Oryza sativa |
transcript | LOC_Os04g14654.3 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
EST: GGTATTACAAGGGCTCTACAGCTTATAGTTGATGTAAATGATACTGCAAA CCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCGEST: gi|163917728|gb|EG711274.1|EG711274
genomic: GGTATTACAAGGGCTCTACAGCTTATAGTTGATGTAAATGATACTGCAAAgtattagctt ... ccgttctcagCCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCG
EST: GGTATTACAAGGGCTCTACAGCTTATAGTTGATGTAAATGATACTGCAAA CCCTAGGGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCGEST: gi|28298184|gb|CB238414.1|CB238414
genomic: GGTATTACAAGGGCTCTACAGCTTATAGTTGATGTAAATGATACTGCAAAgtattagctt ... ccgttctcagCCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCG
EST: GGTATTACAAGGGCTCTACAGCTTATAGTTGATGTAAATGATACTGCAAA CCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCG
genomic: GGTATTACAAGGGCTCTACAGCTTATAGTTGATGTAAATGATACTGCAAAgtattagctt ... ccgttctcagCCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCG
gttatcttggtcacgataacaactactacttacatgttcttgtttccgttctcagCCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCGCCTTGTTCAGCATGCTGTGAGATCTGGATG
tacttac putative branch site (score: 13)
ttcttgtttccgttct putative PPT
ataacaa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttgctgggcaatctttagtgactaattttcttgtcatttataattgttatcttggtcacgataacaactactacttacatgttcttgtttccgttctcagCCCTAGTGATATATCATACATATTTTCTGGATACGCCCCTCTCAGTATTCGCCTTGTTCAGCATGCTGTGAGATCTGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
ttgctgg
- - - - - - - - - - - - - tttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttacatg