Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaaccttattatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: LOC_Os12g36170.1 (Oryza sativa), 3'ss of exon 4
gtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaaccttattatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
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-----------------------------------------gtgctaataat--tttcttaatatcacttccacatgtttgga----tcatggtttattgaaactt-ttcttttatttagAGGGACTATGTAAAGTGGAGAGGTGTGCTCTTCCTTCGGTTCCTGCCATCTTTAGTTGATGAGTCAGAGAAGATAAGGCATTTGGCAGACTTCCTTTTTG
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G571844_T01 (Zea mays), 3'ss of exon 3
gtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaaccttattatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
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-----------------------------gtgctaatcacttctgtaatgctttgttctgaatattgggt---------catggttactgaggctg--------ttatttt--tgtccagAGGGACTATGTAAAGTGGAGAGGGGTTCTCTTCCTTCGATTTCTGCCATCTTTAGTTGATGAGTCTGAGAAGATTAGGCATTTGGCGGACTACCTCTTCG
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G04940.1 (Glycine max), 3'ss of exon 6
gtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaacctta---ttatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
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--------gtactttttatgaatcaacttatttcacagcttgttttcattatctcttctaaaaggtga------agagggaaaaattgtattgtttgctaaaatatgattttcttttatctagAGGGACTATGTGAAATGGAGAGGAGTGCTATTTCTTCGGTTCCTTTTGTCACTTGTTGATGAATCAGAAAAGATAAGGCAGTTAGCGGATTTTCTCTTTG
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA15G15920.1 (Glycine max), 3'ss of exon 5
gtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaacctta---ttatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
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-gtactttttatgaatcaactgcttctatttcacagcttgttttcatttatctcttctaaaaggggaa-------gagggaaaaattgtattatttgctaaaatatgattttcttttatctagAGGGACTATGTGAAATGGAGAGGAGTGCTATTTCTTCGGTTCCTTTTGTCACTTGTTGACGAATCAGAAAAGATAAGGCAGTTAGCGGATTTTCTCTTTG
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G15890.1 (Arabidopsis thaliana), 3'ss of exon 6
gtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaaccttattatcatg-tccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
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-------------------gtattgctattctccacag-attctttatcttctgtttttaaaaagtattgaattgacaatgaa-----taag-------caggcttgttttcttgattcagAGAGACTACGTGAAATGGAGAGGAGTTCTCTTCCTTCGATTCCTTCTATCGCTAGTGGATGAATCTGAAAAGATACGTCGACTTGCAGACTTTTTATTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.caattaagcggcagcaaagtttttaatgttcctttaaccttattatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
ctttaac putative branch site (score: 3)
aaagtttttaatgtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttctatttctatagctttgtcatttatgatattattctcccatgttcatttttgaagatcaattaagcggcagcaaagtttttaatgttcctttaaccttattatcatgtccagAGGGACTATGTGAAGTGGAGAGGAGTACTCTTCCTCCGATTCCTTTTATCTCTTGTTGATGAATCAGAAGAGATAAGGCGGCTTGCAGATTTCCTCTTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT