1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' |
...ctttaaaggggcttctccttcagtttttccctcctaggaaatagctgtccaaaacaaccgattaatttttctaatgagcaaatttctttgtgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTCCCTGTTGGAATGTCCATCTTAGAAGCTGCTCATGAAAATGACATCGAA
species | Oryza sativa |
transcript | LOC_Os07g01930.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|218490073|gb|FG948574.1|FG948574
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCA-GGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|88461626|gb|CI695464.1|CI695464
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|66917010|gb|CX103858.1|CX103858
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|58601999|gb|CK012527.1|CK012527
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|24468825|gb|CA305774.1|CA305774
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|33680135|gb|CF308374.1|CF308374
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTEST: gi|11443010|gb|BF430897.1|BF430897
genomic: ACAGCAACAACTAGTAGTGATCGTGACGATGGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
EST: GGCAGTCAGAGCAAGGAGAA GATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
genomic: GGCAGTCAGAGCAAGGAGAAgtaagtatat ... tgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGT
tgtccaaaacaaccgattaatttttctaatgagcaaatttctttgtgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTCCCTGTTGGAATGTCCATCTTAGAAGCTGCTCATGAAAATGACATCGAA
ttctaat putative branch site (score: 9)
tttctttgt putative PPT
attaatttttctaatg 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ctttaaaggggcttctccttcagtttttccctcctaggaaatagctgtccaaaacaaccgattaatttttctaatgagcaaatttctttgtgctgcacagGATCTCTGTAACATTTGTGAACAAGGATGGCACAGAGCAGACAATCAGTGTCCCTGTTGGAATGTCCATCTTAGAAGCTGCTCATGAAAATGACATCGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - -ggcttct
- - - - - - - - ccttcag
- - - - - - - - - - - - - - - - - -aggaaata
- - - - - - - - - - - - - - - - - - - - - - - - - aaaacaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gagcaaa