1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' | 7 5' 3' | 8 5' 3' |
...tattcctttaataagttaatagattgagaaattgaaatttatctacttgacaacttattcttttctgacataagacaacttattcttgtgtgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAAGCAAGATGTGTACAACACAGACATCTGCTCCACAAATTTCATAGCTCT
species | Oryza sativa |
transcript | LOC_Os12g01449.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|89198800|gb|CI003537.1|CI003537
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|86415438|gb|CI069841.1|CI069841
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|86882487|gb|CI325851.1|CI325851
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|86480775|gb|CI123408.1|CI123408
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|86862736|gb|CI331634.1|CI331634
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88850209|gb|CI091702.1|CI091702
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88830629|gb|CI078073.1|CI078073
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88841821|gb|CI081077.1|CI081077
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|29665532|gb|CB661807.1|CB661807
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88261521|gb|CI365097.1|CI365097
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCCTTTGAAGAGCTAAGAEST: gi|89194967|gb|CI051080.1|CI051080
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88831297|gb|CI082107.1|CI082107
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88474348|gb|CI411619.1|CI411619
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88961895|gb|CI097048.1|CI097048
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88980888|gb|CI021016.1|CI021016
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|89193316|gb|CI050614.1|CI050614
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|29675785|gb|CB672060.1|CB672060
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88830857|gb|CI079291.1|CI079291
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|86481658|gb|CI124291.1|CI124291
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|29674414|gb|CB670689.1|CB670689
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAEST: gi|88469666|gb|CI406937.1|CI406937
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
EST: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAG TTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
genomic: GAGAGTTCTTGCTTCTTCAGGGTGTGAGATTTGCTTTCCGAGTTCATCAGgtataattca ... tgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGA
cttgacaacttattcttttctgacataagacaacttattcttgtgtgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAAGCAAGATGTGTACAACACAGACATCTGCTCCACAAATTTCATAGCTCT
ttctgac putative branch site (score: 60)
ttattctttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| tattcctttaataagttaatagattgagaaattgaaatttatctacttgacaacttattcttttctgacataagacaacttattcttgtgtgttgtatagTTTGCCGGAGGCTTTGACGAGGAAAGCATGAAGGCGTTTGAAGAGCTAAGAAGCAAGATGTGTACAACACAGACATCTGCTCCACAAATTTCATAGCTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - ctacttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - agacaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -attcttg