1 5' 3' | 2 5' 3' | 3 5' 3' |
...gtgcaatgatatcaccattatgcaatttctatataagtagatttaagagggtaactgcattatatcctgaggagttgactaatatgtaaaatgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCATTGGAGATGGAACCGTGAGCTATGGAATGGATGATGCAGATGACATCTA
species | Oryza sativa |
transcript | LOC_Os09g12570.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|86897150|gb|CI294270.1|CI294270
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|88591716|gb|CI709769.1|CI709769
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGACCGTGGTGAAAAGGGCAEST: gi|88401056|gb|CI685038.1|CI685038
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|2280993|gb|C25488.1|C25488
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|33659068|gb|CF281681.1|CF281681
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|55410529|gb|CV722905.1|CV722905
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|88361792|gb|CI681952.1|CI681952
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|10930784|gb|AU161058.1|AU161058
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|88349347|gb|CI678329.1|CI678329
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|55439494|gb|CV733056.1|CV733056
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|29644928|gb|CB649935.1|CB649935
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCAEST: gi|88741058|gb|CI764566.1|CI764566
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
EST: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCG TTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
genomic: TCGATCGGCGATGACGCTGGGGAGCTCCGGCGCCGGATCGAGCGTCGTCGgtgagcgatc ... atgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCA
agagggtaactgcattatatcctgaggagttgactaatatgtaaaatgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCATTGGAGATGGAACCGTGAGCTATGGAATGGATGATGCAGATGACATCTA
gactaat putative branch site (score: 103)
actaatatgtaaaat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtgcaatgatatcaccattatgcaatttctatataagtagatttaagagggtaactgcattatatcctgaggagttgactaatatgtaaaatgcctgcagTTCCGCGAAACTTCAGGTTGCTAGAAGAGCTTGAACGTGGTGAAAAGGGCATTGGAGATGGAACCGTGAGCTATGGAATGGATGATGCAGATGACATCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
-tgcaatg
- - - - - - - - -ttatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - aactgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -atatgta