Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttctagttcacttggttagcagcatacagttcatagtttctttagttattggtattttttcttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA12G03640.1 (Glycine max), 3'ss of exon 6
--------------------------------------------------------gtaagttttctagttcact--tggttagcagcatacagttcatagtttctttagttattggtattt-tttcttgtcaac-cagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
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gttgatatttgtgcatcaattgcttaaactttgcttgataaatttgttaaattgaaaaaaatgttctgataaattgctcctttgcttccttatttgtcttctttggttaattgatgatattggcttgctgttgatatagATATATGGTTCTAGTGTCAATGGTCCTGTTCGGCACAAATGCCTTTCTGTCATTGGAAAATTGATGTATTTCAGCACAGCAGAGATGATCCAGTCTTTGT
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA11G11490.2 (Glycine max), 3'ss of exon 6
-------------------------------------------------------------gtaagttttctagttcacttggttagcagcatacagttcatagtttctttagttattggtatt--ttttcttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
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gttgacatttgtgcattgatcatttgcttaaattttgcttgataaatttgttaaattaaaaaaagaagttctgatattgctcctttgcttccttatttatcttctttggttaattgatggtattggcttgcttttgatacagATATATGGTTCTAGTGTCAATGGTCCTGTTCGGCACAAATGCCTTTCTGTCATTGGGAAATTGATGTATTTCAGCACGGCAGAGATGATCCAGTCTTTGT
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G00600.2 (Glycine max), 3'ss of exon 6
--------------------------------------------------------------------------------------gtaagttttctagttcacttggttagcagcatacagttcatagtttctttag-ttattggtatttttt-----cttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
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gttcaatgtttaaatttactcatcgttaaaatgctcaaattgtattttgtgatttgtttataaatttttaattttttaaataaataaccagctctattttttatatccttgacttctt-cattccttcactcctgtgacttattaatagttttgtcttacttttgaagtagATATATGGTGCTAGCGTCAATGGTCCAGTTCGGCACAAATGTCTTTCTGTCATTGGAAAATTGATGTATTTCAGCACAGCTGAGATGATCCAGTCTTTGT
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G00530.1 (Glycine max), 3'ss of exon 6
---------------------------------------------------------------------------------------gtaagttttctagttcacttggttagcagcatacagttcatagtttctttagttattggta-ttttttcttgtc----aaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
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gttcaatgcttaaatttacttaattgttaaaatgctcaaattatattttgtgatttgtttattaatttttaacttcttaaataaataactggctctattttttatatcctcgacttcttcattccttcactcccgtcacttattactagttttgtcttgcttttgaaacagATATATGGTGCTAGCGTCAATGGTCCAGTTCGGCACAAATGTCTTTCTGTCATTGGAAAATTGATGTATTTCAGCACAGCTGAGATGATCCAGTCTTTAC
upper sequence: Vv03s0038g02340.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagttttct------agttcacttggttagcagcatacagttcatagtttc-tttagttattggtattttttcttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
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gtaatttttctctgcgttggctacaagataatgctcatactacctgctgttttgtctaattattcttgttttcttttgcaa--cagATCTATGGTTCTAGTGTCAATGGTACGATTCGCCATAAATGTCTCTCAGTCATTGGAAAGTTGATGTATTTCAGCAGTTCAGAAATGATTCAATCTCTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcagcatacagttcatagtttctttagttattggtattttttcttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
tattttttcttgtc CT-rich tract
ttattggtatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttctagttcacttggttagcagcatacagttcatagtttctttagttattggtattttttcttgtcaaccagATCTATGGATCCAGTGTGAATGGCCCTGTTCGCCATAAATGTTTGTCAGTTATTGGAAAATTAATGTACTTCAGCACCGCAGATATGATCCAGTCTTTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT