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' |
...tgtgccgaggattctaatctattgtttgattggtatagccagttaggccagtttgattggttctacttctgagtgaacccaatgctaattcttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCTAAATCATGGTGGTCAATTTTGAAGGACCAACATGCAGATGTTCGCCTT
species | Oryza sativa |
transcript | LOC_Os09g12550.1 |
intron # | 14 |
splice site | 3' |
intron type | U2 |
EST: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|29627251|gb|CB632262.1|CB632262
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: CAGGATAATTCAAAACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|87014906|gb|CI271505.1|CI271505
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|86842980|gb|CI342205.1|CI342205
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|66915004|gb|CX101852.1|CX101852
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: CANGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|29673906|gb|CB670181.1|CB670181
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|22305127|gb|BQ906349.1|BQ906349
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: AGGATAATTCAACACCAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCEST: gi|58653118|gb|CK041798.1|CK041798
genomic: AGGATAATTCAACA-CAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
EST: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAG GAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
genomic: CAGGATAATTCAACACAATGTTGCAGACTACTAGGGGAAATATTCTTGAGgtactactta ... cttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGC
ggccagtttgattggttctacttctgagtgaacccaatgctaattcttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCTAAATCATGGTGGTCAATTTTGAAGGACCAACATGCAGATGTTCGCCTT
tgctaat putative branch site (score: 18)
ttcttttcgc CT-rich tract
taattctttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tgtgccgaggattctaatctattgtttgattggtatagccagttaggccagtttgattggttctacttctgagtgaacccaatgctaattcttttcgcagGAACTTATCTCCACAGATTCATATGCCCAATGAATCATATCCCATCCCAGCTAAATCATGGTGGTCAATTTTGAAGGACCAACATGCAGATGTTCGCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
tgtgccg
- - - - - - - - - - - tgtttga
- - - - - - - - - - - - -ttgattg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacccaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgctaat