Sequence
atgc intronic sequence ATGC exonic sequence...tctttgagcagtttgttaatttcttttttggtttcttattagacatgaagaaaaccttggaataagatttctgattttctgtttgctttgtttgaatcagCGTATATGGCTGCTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G36820.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------------tctttgagcagtttgttaatttcttttttggtttcttatt-agacatgaagaaaac--cttggaataagatttctgattttctgtttgctttgtttgaatcagCGTATATGGCTGCTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
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gtataaattataaaatacaacatcacatacatggcttgatttttactattcatggaatcaggagcttgaagttcattacctttcattcaatactctctttgtttccatattcatacttgtttgttgtcgcttgcatgtggatgacttatttgtt-tttcccctaactctattacagCAT-CATTGGCAAGAGACTATTATGATATTCTTGGTGTGAGTAAGAATGCTAGTTCTTCTGAAATAAAGAAAGCTTACTATGGG
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G00580.1 (Glycine max), 3'ss of exon 3
-----------------------------------------------------------------tctttgagcagtttgttaatttcttttt--tggtttctta--ttagacatgaagaaaaccttggaataagat---ttctgattttctgtttgctttgtttgaa--tcagCGTA-TATGGCTG-CTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
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gtataaattacaaaattcagcatcacataaatggcttgattttaactattcatggaatcagaaggagcttga--agttcattacttttcattcaatactctctttgcttccgtatgtatacttgtttgttgtcgcttgcatgttgacgacttatttgttttcctcaaaaactattacagCATCATTGGCAAGAGACTATTATGATGTTCTTGGTGTGAGTAAGAATGCAAGTTCTTCTGAAATAAAGAAAGCTTACTATGGG
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G16150.1 (Glycine max), 3'ss of exon 3
tctttgagcagtttgttaatttcttttttggtttcttattagacatgaagaa---------aaccttggaataagatttctgattttctgtttgctttgtttgaatcagCGTATATGGCTGCTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
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--------tagctctgcattttctattttggtctttcccctgg-atggataattgtttattgccccttgcatgtgattgattactttttctcccataactccttttcagCATCATTGGCA---AGGGACTATTACGAAGTGCTTGGTGTGAGTAAGAATGCTAGTTCTTCTGAAATAAAGAAAGCATACTATGGG
upper sequence: Vv13s0064g01360.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G42640.1 (Glycine max), 3'ss of exon 3
-tctttgagcagtttgttaatttcttttttggtttcttattaga----catgaagaaaaccttggaataagatttctgattttctgtttgctttgtttgaatcagCGTATATGGCTGCTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
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ttagctatgcatttt-ctattttggtcttt--cccctggatagattcttgtttattgccccttgcaggtgaatgattacttttctcccttaactccttt--tcagCATCATTGGCA---AGGGACTATTACGAAGTGCTTGGTGTGAGTAAGAATGCGAGTTCTTCTGAAATAAAGAAAGCATACTATGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaagaaaaccttggaataagatttctgattttctgtttgctttgtttgaatcagCGTATATGGCTGCTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
ttctgat putative branch site (score: 3)
ctttgttt putative PPT
aataagattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tctttgagcagtttgttaatttcttttttggtttcttattagacatgaagaaaaccttggaataagatttctgattttctgtttgctttgtttgaatcagCGTATATGGCTGCTAATGATTATTATGATACACTTGGTGTGAGCAAGAATGCCAGTGCGTCTGAAATAAAGAAAGCTTATTATGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - agacatg
- - - - - - - - - - - - - - - - - - - - - - - -aagaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaataa