Sequence
atgc intronic sequence ATGC exonic sequencegtgagtataaacatttttttttttgtgtccttttcctgcttcttgaacttcacttggacctcattgataaatactcaacaaaatattttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G37340.1 (Glycine max), 3'ss of exon 2
gtgagtataaacatttttttt--tttgtgtccttttcctgcttc-ttgaacttcacttgg--acctcattgata----------aatactcaacaaaat-----attttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
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gtgagtttcttctctttgtctgcttttcctccttcatcagcatcatcaaaatccacgtaatttccttgttaacatcttcttttgatctctccccatggtgtctaattgatcagCAAGCATTTTTGCATATGGACAAACAAGCAGTGGGAAGACATACACCATGAGTGGCATAACTGAATACACAGTGTCAGACATTTTTAACTACATAGAAAA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G24250.1 (Glycine max), 3'ss of exon 2
gtgagtataaacattttttt----ttttgtgtcctt----ttcctgcttcttgaacttcacttggacctcattgataaatactcaacaaaatattttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
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gtgagtttttcttccttcataagaatgaatgtccaaggaatttctatattaacaacttcggccgggccaatttgatctttgattacctatttgat---cagCAAGCATTTTTGCTTATGGACAAACAAGCAGCGGAAAAACATACACCATGAGTGGTATAACAGATTTTGCCATAGCAGATATTTTCAACTACATAGAAAA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G07950.1 (Glycine max), 3'ss of exon 2
gtgagtataaacatttttttt--tttgtgtccttttcctgcttcttgaacttcacttggacctcattgataaatactcaacaaaatattttcc------------------agCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
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gtgagtttcttccctttctatgcttttcctccttcatcagcatcatcaaaatccacggaacttctgtgttaacgtcttcttttgatctctccccctggtgtctaattgatcagCAAGCATTTTTGCATATGGACAAACAAGTAGTGGGAAGACATACACCATGAGTGGCATAACTGAATACACAGTGGCAGACATTTTTAACTACATTGAAAA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G05650.1 (Glycine max), 3'ss of exon 2
gtgagtataaacatttttttttttgtgtccttttcctgcttctt------gaacttcacttggacctc---attgataaatactcaacaaaatatttt-ccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
|||||| | | || || ||| | | ||||| | |||| | |||| || | | | || ||| | || | | |||||| ||||||| |||||||| ||||||||||||||||| ||||| |||| ||| ||||| || || || || | |||| |||||||| | || | ||||| |
gtgagttttt-ctttgttccctttatctgtttttcttccttcataagaatgaacgtccatggaatttctacattaacaacttcggtcgggcatatttgatcagCAAGCATTTTTGCGTATGGACAAACAAGCAGCGGAAAAACATACACCATGAGTGGCATAACAGATTTCGCCATAGCAGATATTTTCAACTACATAGAAAA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G66310.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgagtataaacatttttttttttgtgtccttttcctgcttcttgaacttcacttggacctcattgataaatactcaacaaaatattttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
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----gtttgt-catccttccctctgcgttactactct--ttct----ctccccttgtcttgcatatataa---ttcaaatgcattgttttcagCTAGTGTATTCGCATATGGGCAAACAAGCAGTGGAAAGACGTACACTATGAGCGGAATTACTGACTGCGCCTTGGTTGATATATATGGCTACATTGACAA
upper sequence: Vv04s0023g03060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G51150.2 (Arabidopsis thaliana), 3'ss of exon 4
gtgagtataaacatttttttttttgtgtccttttcctgcttcttgaacttcacttggacctcattgataaatactcaacaaaatattttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
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----gta-aggcatgtctcctactgc------tttttagttttttatcctctgtggctcatgtttgatacaaatttca----actgttttcagCTAGTGTCTTTGCATATGGGCAAACAAGCAGTGGAAAGACATACACTATGATTGGTATTACGGATTATGCCTTGGCTGATATATATGATTACATTGAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttcttgaacttcacttggacctcattgataaatactcaacaaaatattttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
cattgat putative branch site (score: 4)
tattttcc putative PPT
attgataaatactcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtataaacatttttttttttgtgtccttttcctgcttcttgaacttcacttggacctcattgataaatactcaacaaaatattttccagCAAGTATTTTTGCTTATGGACAAACAAGCAGTGGAAAGACATTCACTATGAGCGGAATTACTGAGTATACCATGGCAGATATATATGACCATATAGAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT