Sequence
atgc intronic sequence ATGC exonic sequencegttatctctctctctctcgttcttctgctatcattttacattcagatcatgtataggcatacgtatgataacttaaactttattttcttactaaatgttagaaaaatataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01830.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA20G34250.1 (Glycine max), 3'ss of exon 5
--------------------------------gttatctctctctctctcgttcttctgctatcattttacattcagatcatgtatagg----catacgtatgataacttaaactttattttcttactaaatgttagaaaaat-ataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
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gtacagtcaagctccttcccatcttcaaaacagccacatcatcaaacaaaattgaaatcttatcatgttacatatgcat-atgcaaggtattccttgcttataaacaaccacttgttattgcatactttcaagttcaactaatgatgcaaccaaatatgcagTATGCCTGCCGCAAAACTCTGGCAGATAGCCGACCTCGAGTTAGAGGAAGGTTTGCAAAGAATGATGACTTTGGAGAAACCAATAGAACTACTAGTAGCA
upper sequence: Vv05s0049g01830.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA10G33390.1 (Glycine max), 3'ss of exon 2
gttatctctctctctctcgttcttctgctatcattttacattcagatcatgtataggcatacgtatgataacttaaactttattttcttactaaatgttagaaaaat-ataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
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gtacactcaagcttcttcccatcttcaaaacagccata---tcatgttacatatgcatatgcttataaacaaccactttttattgcatactttcaagttcaactaatgatgaaaccaaatatgcagTATGCCTGCCGCAAAACTCTGGCAGATAGCCGACCTCGAGTCAGAGGAAGGTTTGCAAAGAATGATGACTTTGGGGAAACCAATAGAACTACAAGTAGCA
upper sequence: Vv05s0049g01830.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G33350.1 (Arabidopsis thaliana), 3'ss of exon 3
gttatctctctctctctcgttcttctgctatcattttacattcagatcatgtataggcatacgtatgataacttaaactttatt-ttcttactaaatgttagaaaaatataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
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--------------------------------------------------gttcggtttttattaaaccaaaccggacttaaccgttgttaaatgttgtcccaatgatttttttggggggttgtagTATGCGTGTAGGAAAACATTGGCAGATAGTCGACCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAGCCAAATAGACAAGCTTTTTCAA
upper sequence: Vv05s0049g01830.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G04500.1 (Arabidopsis thaliana), 3'ss of exon 3
gttatctctctctctctcgttcttctgctatcattttacattcagatcatgtataggc-atacgtatgataacttaaactttattttcttactaaatgttagaaaaatataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
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-----------------------------gtctttgtgcttaaccatcataaccggattaaaccagtggttatccatataccgatttgttcacatgttttttt----tgttatattt-tgttgtagTATGCATGTAGGAAGACGTTGGCAGATAGTCGTCCAAGAGTTAGAGGAAGATTTGCAAAGAATGATGAATTTGGTGAACCAAATAGACAAGCCTGTTCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttaaactttattttcttactaaatgttagaaaaatataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
tactaaa putative branch site (score: 1)
tttattttcttactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatctctctctctctcgttcttctgctatcattttacattcagatcatgtataggcatacgtatgataacttaaactttattttcttactaaatgttagaaaaatataataataataatgcagTATGCATGTCGCAAGACACTGGCAGACAGCAGACCACGAGTTAGAGGAAGATTTGCCAAAAATGATGACTTTGGAGAGGCCCCTAGAGCCAGTGGTGGAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA