Sequence
atgc intronic sequence ATGC exonic sequencegtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G05390.1 (Glycine max), 3'ss of exon 6
--gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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gtatattctcttggctctttagctgataaaaaaattgaaattttgttccaaccatttaaacaataacaagctt-gtccaattgtgacac-agGGGGAGAAGGATGATAAAATTATTGCAGTATGTGCTGATGATCCAGAATATAAGCACTATACTGACTTCAAAGAACTTCCACCTCATCGCCTCATGGAGA
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT1G01050.1 (Arabidopsis thaliana), 3'ss of exon 6
-------------------------gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaattcagttctttattc----ataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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gtaaaacctaaacttgatcaatgaaaagactctgttttttttttctcttactctaatcctttaggtcagtttaaatggtcttgtactccaatcttgtatttttggcgctgtaattttagGGTGAAAAAGATGACAAGATCATTGCAGTGTGTGTTGATGATCCTGAATATAAGCACTACACTGACATCAAAGAACTTCCTCCTCACCGTCTCTCTGAAA
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S46_53V6.1 (Physcomitrella patens), 3'ss of exon 7
------------------------------gtgatgtcatttctctcaagcaaatcatgcaaccat-tagttctt-cacagtgagttgaggcatatgaaattcagttctttattcatac-------cagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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gtgagggactattatgccgtactctttgacggaaaccaaactagcttgtattgatcatgttctcatattgttcgtacctaatcatccactatatgt-aaatctaatgttaaatttgtaaggacctgtagGGAGAGAAGGATGACAAGATCATCGCTGTCTGTGCTGACGATCCGGAGTATAGACACTTCAAAGACATCAATGAGTTTCCTCCACATCGACTTGCCGAAA
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ27219 (Selaginella moellendorffii), 3'ss of exon 5
gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaat-tcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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----------------------------gtaacaatca--tcttgctcttgtctgaatgcatatggaagattaattggtggaccgctccagGGCGAGAAGGACGATAAGATCATCGCCGTGTGCGCTGACGATCCCGAGTTCACACACTACCAAGACATCAAGGATCTCCCACCCCACAGGCTGGCAGAGA
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ33440 (Selaginella moellendorffii), 3'ss of exon 5
gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaat-tcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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----------------------------gtaacaatca--tcttgctcttgtctgaatgcatatggaagattaattggtggactgctccagGGCGAGAAGGACGATAAGATCATCGCCGTGTGCGCTGACGATCCCGAGTTCACACACTACCAAGACATCAAGGATCTCCCACCCCACAGGCTGGCAGAGA
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ27171 (Selaginella moellendorffii), 3'ss of exon 4
gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgag-gcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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-------------------------------gtagcaaagtgtttacattcttttcagcgtttctctaagagtgtcatctatctg-atcagGGGGAGAAGGACGATAAGATCATAGCAGTGTGCGCTGATGATCCAGAGTACAAGCATTGCACGGACATCAAGCAGCTCCCGCCTCACAGGCTAGCAGAGA
upper sequence: Vv02s0025g02980.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: EFJ33488 (Selaginella moellendorffii), 3'ss of exon 5
gtgatgtcatttctctcaagcaaatcatgcaaccatta-gttcttcacagtgagttgaggcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
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-----------------------gtagcaaaatgtttacatccttttcagcgtttt------tctaagagt--gtcatctatctg-atcagGGGGAGAAGGACGATAAGATCATAGCAGTGTGCGCTGATGATCCAGAGTACAAGCATTGCACGGACATCAAGCAGCTCCCGCCTCACAGGCTAGCGGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttagttcttcacagtgagttgaggcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
ttctttattc CT-rich tract
atatgaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgtcatttctctcaagcaaatcatgcaaccattagttcttcacagtgagttgaggcatatgaaattcagttctttattcataccagGGAGAGAATGACGATAAGATCATTGCTGTATGCGCTGACGATCCAGAATATCGACACTACACTGACATCAAAGAGCTTCCACCTCATAGACTAGCTGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA