Sequence
atgc intronic sequence ATGC exonic sequencegtgtgtcattcaggccctgctttcagagtaattctttttttatttacagttttccactgcactttgctaacacttcgtctctgcagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g27040.1 (Oryza sativa), 3'ss of exon 6
-gtgtgtcattcaggccctgctttcagagtaattcttttttta-tttacagttttccactgcactttgctaacacttcgtctctgcagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTA
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gttagtttacttagcctccgctctccaaccattcttatgaacaacttctgatgttgtactgaacatt--ttgcattctgtttggtcagAACCATATAAGGGAGAACCTATTGCAGCCAGGAAAATTTGATGTGTGTGTCACTAGTTTTGAAATGGCAATCAAAGAAAAAACTACACTGAAGCGTTTCA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 3
gtgtgtcattcaggccctgctttcagagtaattctttttttatttacagt-tttccactgc-actttgctaacact-tcgtctctg-cagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTA
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--------gttagtctcaactctaaagtctaatctctaatgacttatggagcctatattgccatgttactgaccttctcttctgtgtcagAACCATATAAGGGACAATTTGCTGCAACCTGGGAAATTTGATGTGTGTGTGACTAGTTTTGAAATGGCAATCAAAGAAAAATCTGCGTTGAGGCGCTTCA
upper sequence: Vv05s0020g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 6
gtgtgtcattcaggccctgctttcagagtaattctttttttatttacagttttccactgcactttgctaacacttcgtctctgcagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTA
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gtaagtcatgagctgtctgccatttcag-aatttcatgtaaacgttta---tcccaggattctgaaatgtctgctaactgatgcagAGACATATTCGAGAAGACCTGCTAGTTGCTGGGAAATTTGATATTTGTGTCACAAGCTTTGAGATGGCCATCAAAGAGAAGACAGCACTTCGTCGGTTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctttttttatttacagttttccactgcactttgctaacacttcgtctctgcagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTA
tgctaac putative branch site (score: 1)
cttcgtctct CT-rich tract
tttttatttacagttt TA-rich tract
Putative cis-regulatory sequences
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtgtcattcaggccctgctttcagagtaattctttttttatttacagttttccactgcactttgctaacacttcgtctctgcagAGGCATATACGTGACAATTTACTGGTTGCTGGGAAATTTGATGTCTGTGTCACTAGTTTCGAGATGGCCATCAAAGAGAAAACTACATTGCGACGCTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA