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' |
...aatgatccatcaaattggtatagaaaaagcataacacttcagcggatttgaatgctatgttttatcactattttgatgatttactgttcctttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATATAGAGACAATAGAAGTAACAGGGGAAG
species | Oryza sativa |
transcript | LOC_Os04g42010.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|88843313|gb|CI372213.1|CI372213
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: TGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTTTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|33798570|gb|CF325143.1|CF325143
genomic: TGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGA-TATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86871953|gb|CI332125.1|CI332125
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGCCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGCCGGTCAAGGAAAATEST: gi|88993134|gb|CI108762.1|CI108762
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: ACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|89197113|gb|CI021953.1|CI021953
genomic: ACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|89193612|gb|CI116245.1|CI116245
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGTCGTTCAAGGAAAATEST: gi|86431392|gb|CI085003.1|CI085003
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86862127|gb|CI330697.1|CI330697
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTT-GAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86603303|gb|CI112063.1|CI112063
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGATGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGCCGGTCAAGGAAAATEST: gi|88256528|gb|CI358916.1|CI358916
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86427996|gb|CI073093.1|CI073093
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|88907105|gb|CI089899.1|CI089899
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86432658|gb|CI086269.1|CI086269
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86430286|gb|CI082709.1|CI082709
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|88837163|gb|CI078523.1|CI078523
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86430372|gb|CI082795.1|CI082795
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|88376216|gb|CI533118.1|CI533118
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: GGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|89192806|gb|CI050104.1|CI050104
genomic: GGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|33799670|gb|CF325698.1|CF325698
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86842260|gb|CI335194.1|CI335194
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: TTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|88218676|gb|CI218525.1|CI218525
genomic: TTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|86425885|gb|CI070982.1|CI070982
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|218478715|gb|FG955118.1|FG955118
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCTG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATEST: gi|88837171|gb|CI078531.1|CI078531
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
EST: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCG GTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
genomic: AGGTGGTTTGATTATGAAGGGCCATCTTGTTACTTTGGAACCTGTGTCCGgtaagaactg ... tttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAAT
atttgaatgctatgttttatcactattttgatgatttactgttcctttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATATAGAGACAATAGAAGTAACAGGGGAAG
ttttgat putative branch site (score: 9)
tttactgttcctttc putative PPT
ttttatcactatttt 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| aatgatccatcaaattggtatagaaaaagcataacacttcagcggatttgaatgctatgttttatcactattttgatgatttactgttcctttcattcagGTCAAGCTGAGAAGGATTATTGGAGTGCGATAAAGGGCGGTCAAGGAAAATATAGAGACAATAGAAGTAACAGGGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - -catcaaa
- - - - - - - - - - -agaaaaa
- - - - - - - - - - - - - - - - - - cttcagc
- - - - - - - - - - - - - - - - - - - - - - - - tgaatgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ttgatga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tactgtt