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' |
...atatctgaagaaaactgaactttcatatacatcaaataatccattaggatcaacatgagtgcattggagacataattcctaacaaattgctttttggtagTGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGAGAAACAAGCCCAAATATTTTCTGAAGAGTGCAAACTATTTCCTGCAGAT
species | Oryza sativa |
transcript | LOC_Os01g64920.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ATTGTTGATCTAGTTGAAGCTAGCTGCTATGCTGACAATCCAGAGTGGAG TGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGAEST: gi|29687390|gb|CB683665.1|CB683665
genomic: ATTGTTGATCTAGTTGAAGCTAGCTGCTATGCTGACAATCCAGAGTGGAGgttggcttta ... tttttggtagTGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGA
EST: ATTGTTGATCTAGTTGAAGCTAGCTGCTATGCTGACAATCCAGAGTGGAG TGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGAEST: gi|29686929|gb|CB683204.1|CB683204
genomic: ATTGTTGATCTAGTTGAAGCTAGCTGCTATGCTGACAATCCAGAGTGGAGgttggcttta ... tttttggtagTGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGA
EST: TCCAGAGTGGAG TGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGA
genomic: TCCAGAGTGGAGgttggcttta ... tttttggtagTGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGA
aggatcaacatgagtgcattggagacataattcctaacaaattgctttttggtagTGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGAGAAACAAGCCCAAATATTTTCTGAAGAGTGCAAACTATTTCCTGCAGAT
tcctaac putative branch site (score: 19)
ttgcttttt putative PPT
taacaaatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| atatctgaagaaaactgaactttcatatacatcaaataatccattaggatcaacatgagtgcattggagacataattcctaacaaattgctttttggtagTGTTGATGAGCAGCTGGCAAAAGATGTGCTGCTCGTAGATTCAATTGCAGAGAAACAAGCCCAAATATTTTCTGAAGAGTGCAAACTATTTCCTGCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - gaagaaa
- - - - - - - - - -ctttcat
- - - - - - - - - - - - - - -catcaaa
- - - - - - - - - - - - - - - - - - - - - - - - atcaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcatt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aacaaat