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' |
...ttttccttcactggtttgattctttgcttgtttgggatcatgtttaggtttcttgttggatttggtactgatctcgttaggtttcttggcccgtttccagGTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCGACGAGCAGGAACTTCAAGCAGGCGGCCAAGCTGCTGGGCCTGGACTCCA
species | Oryza sativa |
transcript | LOC_Os03g58040.3 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: CTAATTGCTTCGTGGCTTCGCTCGTCTGGTTTTCTAAGT GTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCGEST: gi|88396587|gb|CI601070.1|CI601070
genomic: CTAATTGCTTCGTGGCTTCGCTCGTCTGGTTTTCTAAGTgtaagataag ... ccgtttccagGTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCG
EST: GAGATCCTCGACTAATTGCTTCGTGGCTTCGCTCGTCTGGTTTTCTAAGT GTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCG
genomic: GAGATCCTCGACTAATTGCTTCGTGGCTTCGCTCGTCTGGTTTTCTAAGTgtaagataag ... ccgtttccagGTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCG
aggtttcttgttggatttggtactgatctcgttaggtttcttggcccgtttccagGTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCGACGAGCAGGAACTTCAAGCAGGCGGCCAAGCTGCTGGGCCTGGACTCCA
tactgat putative branch site (score: 2)
cccgtttcc putative PPT
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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ttttccttcactggtttgattctttgcttgtttgggatcatgtttaggtttcttgttggatttggtactgatctcgttaggtttcttggcccgtttccagGTGCGGCTCTGAAGGGGAATTTCGTCGAACAGGATGAATGCGTTGGCAGCGACGAGCAGGAACTTCAAGCAGGCGGCCAAGCTGCTGGGCCTGGACTCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - ccttcac
- - - - - - - - tgattct
- - - - - - - - - - - -ttgcttg
- - - - - - - - - - - - - - - - - - atcatgt
- - - - - - - - - - - - - - - - - - - - - - - - tttcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtactg