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' | 10 5' 3' | 11 5' 3' | 12 5' 3' | 13 5' 3' | 14 5' 3' | 15 5' 3' | 16 5' 3' |
gtaaagttcttactttgtcatcatcaatgttttcttcagtatatttcctgtgtacctgggttgtgttccctctttttggcaggtgccctttaatatatatcatatatgcctattgaaatgatatcccttcaactataaccacaacatgattgttttctttagGTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGACTTCAAATGAAGACCAAAAAAGAGGAGTCCAGATAATCCAGAATGGTCT
species | Vitis vinifera |
transcript | Vv09s0002g02240.t01 |
intron # | 13 |
splice site | 3' |
intron type | U2 |
EST: AGAGCAGCTATTGAAGAGGGTATTGTACCTG GTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGAEST: gi|33408367|gb|CF213994.1|CF213994
genomic: AGAGCAGCTATTGAAGAGGGTATTGTACCTGgtaaagttct ... ttttctttagGTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGA
EST: AGCTATTGAAGAGGGTATTGTACCGAT- GTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGEST: gi|110420866|gb|EC987151.1|EC987151
genomic: AGCTATTGAAGAGGGTATTGTACC--TGgtaaagttct ... ttttctttagGTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAG
EST: AGATGCTTTGAATGCCACAAGAGCAGCTATTGAAGAGGGTATTGTACCTG GTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGA
genomic: AGATGCTTTGAATGCCACAAGAGCAGCTATTGAAGAGGGTATTGTACCTGgtaaagttct ... ttttctttagGTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGA
gcctattgaaatgatatcccttcaactataaccacaacatgattgttttctttagGTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGACTTCAAATGAAGACCAAAAAAGAGGAGTCCAGATAATCCAGAATGGTCT
ctataac putative branch site (score: 3)
ttgttttcttt putative PPT
aaatgatat 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 ---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| gtaaagttcttactttgtcatcatcaatgttttcttcagtatatttcctgtgtacctgggttgtgttccctctttttggcaggtgccctttaatatatatcatatatgcctattgaaatgatatcccttcaactataaccacaacatgattgttttctttagGTGGTGGTGTTGCTCTATTGTATGCCACAAAAGTTCTGGAAAACATTCAGACTTCAAATGAAGACCAAAAAAGAGGAGTCCAGATAATCCAGAATGGTCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG