Sequence
atgc intronic sequence ATGC exonic sequencegtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G22390.1 (Glycine max), 3'ss of exon 4
gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatac-tatgttggcaccaatattgctgaaggctt--gatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
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-------------------------------------aatccatgttgttacatggtgaaacattttataccttgtcatgtcaacctattcatatttatcatgtgtgtgtcctcactgaattcaacaatctttccagATCAAAGACTGCAGAACACGTTACAACGGTGATGCTGATCATCATCAACGACGTAAAAAGTTTACATTTCCTGCTCGCCTTATATGTGGAGATTGTTATG--
upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 4
gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
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-------------------cgttacatggtgaaacactgtat---accttg-tcatgtcaaactatttgtaattatcatgtctgtcct--cacggtctgctcattgaatt--caacaatctttcca-------gATCAAGGACTGCCGGACACGTTACAACGGTGATGCTGACCATCATCAGCGACGTAAAAAGTTTACATTTCCTGCTCGCCTTATATGTGGAGATTGTTATG--
upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G22390.1 (Glycine max), 3'ss of exon 3
-------------------------gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
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gtcttcatggttttcagttgtttatataccaaaagtcattccca-gtttcttggctaatcatccttttttttcataatgtttaccagGGTGGTGATCTTATCAAATGGGACAAGGCCAAAATTGGATATTATGTTGGTATTGACATTGCTGAAGGCTCA------------------------------------------------------------------------------------------------------
upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G41190.1 (Glycine max), 3'ss of exon 3
----------------------------gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattt-tgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
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gtgttaatggttttcatttgttgtttatataccaaaagacattctcagtttcttggctaaccatccttttttgtttcataatgtttaccagGGTGGTGATCTTATCAAATGGGACAAGGCCAAAATTGGATATTATGTTGGTATTGACATTGCTGAAGGCTCG------------------------------------------------------------------------------------------------------
upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G17220.1 (Glycine max), 3'ss of exon 6
gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATA--GACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
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------------------------------atggttaaatattgtatcattttcatgtcaaactatttgtagttatcgtgtctgtcct--cactgtctgctcattgaatt--caacaatctttcc-------tgaacaaagACTACTGGACACATTATAATGGTGATATGCTGACTATCATCCGTGACATAAAAAGTTTACATTTCCTGCTCGCCTTATATGTGGAGCTT--------
upper sequence: Vv04s0023g02860.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G17220.1 (Glycine max), 3'ss of exon 4
--------------------------------------gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
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gtgttaatggttttcagttgttgtttatataccaaaagacattctcagtttcttggctaaccatagagtccatccttttttgtttcataatgtttaccagGGTGGTGATCTTATCAAATGGGACTAGGCCAAAATTGGATATTATGTTGGTATTGACATTGCTGAAGGCTCGGTAT-------------------------------------------------------------------------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
gcttgat putative branch site (score: 5)
aatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgtcctcattcagctttatgctctccgaggggatgctgttcttgattttgctcgtggcaagggtggtgatctaatcaaataggacaaggcaaagattggatactatgttggcaccaatattgctgaaggcttgatagaagACTGTTGTACACGCTATAATGGTGACATAGACCATCATCAAAGGCGCAAAAAGTTCACATTTCCGGCTCGCCTTATATGTGGAGATTATTTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT