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' |
...gtattttactcttaatctaaaacacgagtacctgatttcaccacctgcttgtttgcgagaaacagtcagtataacacgaatacacgattcattcctgcagTCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAAGAACGAGCTCGTGATCGGCATCATCGACTTCCTCCGGCAGTACACCTGGG
species | Oryza sativa |
transcript | LOC_Os09g23740.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: CAAAACAAAGAATGGAAAGAGCTGTCTGGAACGATACATCATTCCTTGCG TCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAAGEST: gi|29685170|gb|CB681445.1|CB681445
genomic: CAAAACAAAGAATGGAAAGAGCTGTCTGGAACGATACATCATTCCTTGCGgtatgtaact ... attcctgcagTCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAAG
EST: TCATTCC-TGCAG TCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAAEST: gi|29685171|gb|CB681446.1|CB681446
genomic: TCATTCCTTGC-Ggtatgtaact ... attcctgcagTCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAA
EST: TCATTCC-TGCAG TCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAA
genomic: TCATTCCTTGC-Ggtatgtaact ... attcctgcagTCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAA
tgcttgtttgcgagaaacagtcagtataacacgaatacacgattcattcctgcagTCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAAGAACGAGCTCGTGATCGGCATCATCGACTTCCTCCGGCAGTACACCTGGG
gtataac putative branch site (score: 1)
ttcattcct putative PPT
agtataa 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtattttactcttaatctaaaacacgagtacctgatttcaccacctgcttgtttgcgagaaacagtcagtataacacgaatacacgattcattcctgcagTCATTGGACGTCATGGACTACTCGCTTCTGGTCGGCGTAGACGAGAGGAAGAACGAGCTCGTGATCGGCATCATCGACTTCCTCCGGCAGTACACCTGGG
- - - - - - - - ctaaaac
- - - - - - - - - - - - - -gtacctg
- - - - - - - - - - - - - - - - - - ttcacca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -acacgaa