Sequence
atgc intronic sequence ATGC exonic sequencegtactatatggcattagttttagtccttgtaaaaaattttagccagtgtgacagttcttcattctgtcgcctgagcttaggtctcagagccttgaatgcttgatattttggttgccaatttctgttgtaaatgtccaattggagatgctaattgtataacaataattatcactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G30780.1 (Glycine max), 3'ss of exon 5
gtactatatggcattagttttagtccttgtaaaaaattttagccagtgtgacagttcttcattctgtcgcctgagcttaggtctcagagccttgaatgcttgatattttggttgccaatttctgttgtaaatgtccaattggagatgctaattgtataacaataattatcactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
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---------------------------------------------------------------------------atccgttttgtaagcttttatagcattattagcaaatcgcaaatgatgaacttggtttattcttctgaattgctaattttctgacaatatcaatcagtagATTCGAGATTCCATTCGGGCTTTATTCCCAGATAGAGAATGCTTCACTCTTGTGCGACCTCTGAACGATGAAAATGATCTACAGCGACTTGATCAGATAT
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 5
gtactatatggcattagttttagtccttgtaaaaaattttagccagtgtgacagttcttcattctgtcgcctgagcttaggtctcagagccttgaatgcttgatattttggttgccaatttctgttgtaaatgtccaattggagatgctaattgtataacaataattat-cactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
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--------------------------------------------------------------------------aaatacattttgcaagcttttatgacacattaaaaagtggaaaatatgaact-tcattttctatctggattcattaattttttgacaa-aattatactatagATTCGAGATTCCATTCGGGCTTTATTCCCAGACAGGGAATGTTTCACTCTTGTGAGACCTTTGAACAACGAAAATGATCTACAGCGACTGGACCAGATAT
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 5
gtactatatggcattagttttagtccttgtaaaaaattttagccagtgtgacagttcttcattctgtcgcctgagcttaggtctcagagccttgaatgcttgatattttggttgccaatttctgttgtaaatgtccaattggagatgctaattgtataacaataattat-cactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
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--------------------------------------------------------------------------aaatacattttgcaagcttttatgacacattgaaaagtggcaaatatgaact-tcattttctatccagattcattaatttttggacaa-aattatactatagATTCGAGATTCCATTCGGGCTTTATTCCCAGACAGGGAATGCTTCACTCTTGTGCGACCTTTGAACAACGAAAATGATCTACAGCGACTGGACCAGATAT
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G46070.1 (Arabidopsis thaliana), 3'ss of exon 5
gtactatatggcattagttttagtccttgtaaaaaattttagccagtgtgacagttcttcattctgtcgcctgagcttaggtctcagagccttgaatgcttgatattttggttgccaatttctgttgtaaatgtccaattggagatgctaattgtataacaataattatcactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
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----------gtactatgttatttctttttcgagtaattt---tattttaatagtcaggcattcttgag---aaacccgggtttggtgatcaagtgtaattc---ctttggtagaataattgtat-gtcagtgacacagtg-------taactgaa-agcaatttctttttgcagATCCGAGATTCAATCCGTGCTCTTTTTCCGGACAGAGAGTGCTTTACCCTTGTAAGGCCTCTGAACAATGAGAAGGACCTGCAGAGACTGGATCAAATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttgtaaatgtccaattggagatgctaattgtataacaataattatcactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
taattgtataacaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactatatggcattagttttagtccttgtaaaaaattttagccagtgtgacagttcttcattctgtcgcctgagcttaggtctcagagccttgaatgcttgatattttggttgccaatttctgttgtaaatgtccaattggagatgctaattgtataacaataattatcactagATCCGGGATTCCATTCGAGCTCTTTTTCCAGACAGAGAATGTTTCACCCTTGTGCGGCCTCTGAATAATGAAAATGATCTCCAGCGACTAGATCAGATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA