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' |
...gcgagtttaggggccgggatgacacagcggtacaagtttagggaccggtgatggactttactctttaacatatatctgagcaactttccctttctttcagGAGGAAGAACAAATGAAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAGAGAATAGCCGCAAGAAGTAATGGGAAGAGTGATCCTCCTAAAGCAAGCA
species | Oryza sativa |
transcript | LOC_Os07g26440.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
EST: AGAACATGCGAGCATATAAAGCTGATCTCCAGAAACTGAAGAAAGAGCAG GAGGAAGAACAAATGAAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAGEST: gi|9864913|gb|AU100663.1|AU100663
genomic: AGAACATGCGAGCATATAAAGCTGATCTCCAGAAACTGAAGAAAGAGCAGgtattgtttc ... tttctttcagGAGGAAGAACAAATGAAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAG
EST: GAACATGCGAGCATATAAAGCTGATCTCCAGAAACTGAAAGAAAGAGCAG GAGGAAGAACANATGAAGCCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAEST: gi|29674489|gb|CB670764.1|CB670764
genomic: GAACATGCGAGCATATAAAGCTGATCTCCAGAAACTG-AAGAAAGAGCAGgtattgtttc ... tttctttcagGAGGAAGAACAAATGAAG-CGACTGGAGAGGCTTAAACTAGAGAGGCAAAA
EST: AGAACATGCGAGCATATAAAGCTGATCTCCAGAAACTGAAGAAAGAGCAG GAGGAAGAACAAATGTAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAG
genomic: AGAACATGCGAGCATATAAAGCTGATCTCCAGAAACTGAAGAAAGAGCAGgtattgtttc ... tttctttcagGAGGAAGAACAAATGAAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAG
cggtgatggactttactctttaacatatatctgagcaactttccctttctttcagGAGGAAGAACAAATGAAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAGAGAATAGCCGCAAGAAGTAATGGGAAGAGTGATCCTCCTAAAGCAAGCA
ctttaac putative branch site (score: 10)
caactttccctttctt putative PPT
tctttaacatatat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gcgagtttaggggccgggatgacacagcggtacaagtttagggaccggtgatggactttactctttaacatatatctgagcaactttccctttctttcagGAGGAAGAACAAATGAAGCGACTGGAGAGGCTTAAACTAGAGAGGCAAAAGAGAATAGCCGCAAGAAGTAATGGGAAGAGTGATCCTCCTAAAGCAAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - ggtgatg