Sequence
atgc intronic sequence ATGC exonic sequencegtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatctatttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os05g29050.1 (Oryza sativa), 3'ss of exon 14
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatct-atttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
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------------------------------------------------------------------gtaaagtatgagtcttgtccatttctggagcatgttttgttttctgccagggtcctggcactttgccatttaa--gag-ttgtgattcaaagaattagcatgtaaaatatt----------tggcattgcagATTTATGTCCACAGTAAGTTGATGATAATTGATGACCGCATCACATTGATTGGATCAGCTAACATAAATGATAGAAGCTTGCTTGGATCAAGAGATTCTG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: LOC_Os01g20860.1 (Oryza sativa), 3'ss of exon 13
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatctatttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
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---------------------------------------------gtagagaggcctgaattaattttccactctatttgt----------ttaatattgtcctgtt---accttccta--ggtcatggattaag--att-agtataatgttagtttctttcttttccttcttttgctaacagtctgaattttgcagATATATGTGCACAGTAAGTTGATGATCATTGATGACCGGATGACACTGATTGGATCAGCTAACATAAATGACAGAAGTTTGCTTGGATCAAGGGATTCTG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 14
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatctatttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagt-ggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
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--------------------------------------------------------------------------------tttg-acccttgacatatgcgaaatgtc----ttataaaatagac-tgggaggagcagcata---taaaatgtattcaggataccattcta-acaatgt---cccatt-----tccagATTTATGTACATAGCAAGTTAATGATAGTTGATGACCGCATCACATTGATTGGCTCAGCTAATATTAATGATAGAAGCTTGCTTGGATCAAGAGACTCCG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA09G04620.1 (Glycine max), 3'ss of exon 15
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatctatttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
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------------------------------------------------------------------------------------------------gtattcttttgcatctgtctacagtc-atatacagagttagtttcagtc---agcttaatgatatg-cactttt----------------------tgcagGTGTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: GLYMA15G16270.1 (Glycine max), 3'ss of exon 15
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatctatttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
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------------------------------------------------------------------------------------------------gtattctttcgcatctgtctatggtc-atatacagaggtagtttcagtc---agcttaatgatatg-cactttt----------------------tgcagGTGTATGTTCACAGTAAAATCATGATTGTTGATGATTGTATTACTTTGATTGGATCTGCTAATATTAATGATAGGAGCTTACTTGGCTCCAGAGATTCTG
upper sequence: Vv05s0077g01830.t01 (Vitis vinifera), 3'ss of exon 16
lower sequence: AT3G16785.1 (Arabidopsis thaliana), 3'ss of exon 15
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaatta--caaaatctatttgtatgcatctttttcatgttttttttt-ttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttc-------tgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
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----------------------------------------------------gtaacaactcaatcatccagggtttagatttgtgcattgctgcctttttttttgtgatcacggaatcatataggatgccctgtta-tacatgtgcttg-aatgcagtggtagtgagtattaaaaatgtgaatgctatttttttctctcaatgcagGTGTATGTTCACAGTAAAATCATGATAGTTGATGACCGTGCTGCATTGATTGGATCTGCCAATATTAACGACCGGAGTTTGCTTGGCTCAAGAGATTCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
ttcctattgtttct CT-rich tract
tatatcatttttcaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattgtgttttgctgatgcacataatcacatatgtacatttattttcaatgttccctaatcaattacaaaatctatttgtatgcatctttttcatgtttttttttttaaatttttataatggacatgggaaaaacaattgagcttggaactcagtggtatatcatttttcacattatattcctattgtttctgtagGTGTATGTGCATAGCAAAATCATGATAGTTGATGACTGCACAACCTTGATTGGATCCGCTAACATTAATGATAGGAGTTTGCTTGGATCAAGAGATTCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA