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' | 22 5' 3' | 23 5' 3' | 24 5' 3' | 25 5' 3' | 26 5' 3' | 27 5' 3' | 28 5' 3' |
gtatgcatgtttacattacatgcattgaagaggattgtcttttacccatgatatccaatccaatggtcttggccatggtggacaatggtaggatcattaattctactgtcgctgcttcatttgttgtgaacagGTTGGGGAAGAGGGGGAAGATGGAGAGGAAGAGGAGGAGGAGGATCGTCAGGAAGAGAGTAGTGATGGGAGACAGCAGAATGTGGAAGAAGAGGCTGTTG
species | Arabidopsis thaliana |
transcript | AT1G79990.1 |
intron # | 27 |
splice site | 3' |
intron type | U2 |
EST: TGCAAATAGAGGAAGAGGGTCGACTTGAGCAAGGGGATGTTCTCGACGAG GTTGGGGAAGAGGGGGAAGEST: gi|125087913|gb|EL146870.1|EL146870
genomic: TGCAAATAGAGGAAGAGGGTCGACTTGAGCAAGGGGATGTTCTCGACGAGgtatgcatgt ... ttgtgaacagGTTGGGGAAGAGGGGGAAG
EST: TGCAAATAGAGGAAGAGGGTCGACTTGAGCAAGGGGATGTTCTCGACGAG GTTGGGGAAGAGGGGGEST: gi|47831644|gb|CK121328.1|CK121328
genomic: TGCAAATAGAGGAAGAGGGTCGACTTGAGCAAGGGGATGTTCTCGACGAGgtatgcatgt ... ttgtgaacagGTTGGGGAAGAGGGGG
EST: TGCAAATAGAGGAAGAGGGTCGACTTGAGCAAGGGGATGTTCTCGACGAG GTTGGGGAAGAGGGGGAAGATG
genomic: TGCAAATAGAGGAAGAGGGTCGACTTGAGCAAGGGGATGTTCTCGACGAGgtatgcatgt ... ttgtgaacagGTTGGGGAAGAGGGGGAAGATG
tggacaatggtaggatcattaattctactgtcgctgcttcatttgttgtgaacagGTTGGGGAAGAGGGGGAAGATGGAGAGGAAGAGGAGGAGGAGGATCGTCAGGAAGAGAGTAGTGATGGGAGACAGCAGAATGTGGAAGAAGAGGCTGTTG
cattaat putative branch site (score: 3)
atcattaatt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtatgcatgtttacattacatgcattgaagaggattgtcttttacccatgatatccaatccaatggtcttggccatggtggacaatggtaggatcattaattctactgtcgctgcttcatttgttgtgaacagGTTGGGGAAGAGGGGGAAGATGGAGAGGAAGAGGAGGAGGAGGATCGTCAGGAAGAGAGTAGTGATGGGAGACAGCAGAATGTGGAAGAAGAGGCTGTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT