1 5' 3' | 2 5' 3' | 3 5' 3' | 4 5' 3' | 5 5' 3' | 6 5' 3' |
...ctggtgtgattttgaggtaatgagggatcttaatgtggctgctatcaaatgttagattcacggcagtagttggcactttgatatgcttgactttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGATTTCGTCACCAAGGAGGTCCTCATTGAAGATAGGCTCGTGACTCTGCAG
species | Oryza sativa |
transcript | LOC_Os01g51700.1 |
intron # | 2 |
splice site | 3' |
intron type | U12 (go to U12 genes for details) |
EST: GGTGGGGAAGACGTCGCTTATGAACCA ATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGAEST: gi|58598437|gb|CK008965.1|CK008965
genomic: GGTGGGGAAGACGTCGCTTATGAACCAgtatccttgc ... ctttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGA
EST: GGTGGGGAAGACGTCGCTTATGAACCA ATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGAEST: gi|163925455|gb|EG711568.1|EG711568
genomic: GGTGGGGAAGACGTCGCTTATGAACCAgtatccttgc ... ctttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGA
EST: GGTGGGGAAGACGTCGCTTATGAACCA ATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGAEST: gi|27576487|gb|CA999181.1|CA999181
genomic: GGTGGGGAAGACGTCGCTTATGAACCAgtatccttgc ... ctttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGA
EST: GGTAGGGAAGACGTCGCTTATGAACCA ATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCAACAATTGGTGCGGA
genomic: GGTGGGGAAGACGTCGCTTATGAACCAgtatccttgc ... ctttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGA
caaatgttagattcacggcagtagttggcactttgatatgcttgactttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGATTTCGTCACCAAGGAGGTCCTCATTGAAGATAGGCTCGTGACTCTGCAG
atgcttgac putative branch site
tttgatat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| ctggtgtgattttgaggtaatgagggatcttaatgtggctgctatcaaatgttagattcacggcagtagttggcactttgatatgcttgactttagttagATATGTTCACAAGAAGTTTAGCCAGCAGTACAAAGCTACAATTGGTGCGGATTTCGTCACCAAGGAGGTCCTCATTGAAGATAGGCTCGTGACTCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG