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' |
gtgtgattcaaacgcttatgattttctgcatacttttgatcttgattctcccataacatcgatttgtgaaatacgtattgatacagATATTCCCGGAGCTCTGGTGCTAAACCCCTTTGGCCAATAGCAAGCGGACGAGTCTCTAAATCTGAGCTTCCCAGTTGCAAATCTTGTGGTGGTCCTCGT
species | Arabidopsis thaliana |
transcript | AT4G02220.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTCTGAG ATATTCCCAGAGCTCEST: gi|164143132|gb|ES073447.1|ES073447
genomic: TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTCTGAGgtgtgattca ... attgatacagATATTCCCGGAGCTC
EST: TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTCTGAG ATATTCCCAGAGCTCEST: gi|116429555|gb|EG472147.1|EG472147
genomic: TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTCTGAGgtgtgattca ... attgatacagATATTCCCGGAGCTC
EST: TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTTTGAG ATATTCCCGGAGCTCTGGTGCTAAACCCCTTTGGCCAATAGCAAGCGGACG
genomic: TGGGTTAATTTCCAGCAACGCGTAGACAAAGCCCCTGAACAAGTTCTGAGgtgtgattca ... attgatacagATATTCCCGGAGCTCTGGTGCTAAACCCCTTTGGCCAATAGCAAGCGGACG
acttttgatcttgattctcccataacatcgatttgtgaaatacgtattgatacagATATTCCCGGAGCTCTGGTGCTAAACCCCTTTGGCCAATAGCAAGCGGACGAGTCTCTAAATCTGAGCTTCCCAGTTGCAAATCTTGTGGTGGTCCTCGT
tattgat putative branch site (score: 3)
tattgata 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgtgattcaaacgcttatgattttctgcatacttttgatcttgattctcccataacatcgatttgtgaaatacgtattgatacagATATTCCCGGAGCTCTGGTGCTAAACCCCTTTGGCCAATAGCAAGCGGACGAGTCTCTAAATCTGAGCTTCCCAGTTGCAAATCTTGTGGTGGTCCTCGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG