Sequence
atgc intronic sequence ATGC exonic sequencegtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G17930.1 (Glycine max), 3'ss of exon 8
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtg-atgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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-----------------------gagcatgga-tcaataatgttacaagcatatgctcagaatgcatttttgacttagct-atatgttatgaatactgatagtctg--atattctatatgcccacagAAATTGTATGAGGAAGCAAGCCAAGTGGCAAATGATGCTGTGGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAGGTGATGGAATTATACC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G04590.1 (Glycine max), 3'ss of exon 8
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtg-atgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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-----------atgttaatgagcatggatgaaa---aa--tgttactagcatatgctcagaatgcatttttgacttagct-atatgata----------tgaatactgatattctgtatgcccacagAAATTGTATGAGGAAGCGAGTCAAGTGGCAAATGATGCTGTGGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAGGTGATGGAATTGTACC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G17920.1 (Glycine max), 3'ss of exon 8
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgt-agtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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-----------------aagatagagacatggatcaacagtgtgaaaaa-aatgtgctctgaatatgcttttgtcttatctatatgttatgggt-------attaatattgtatttaccta--acagAAACTGTATGAGGAAGCAAGTCAAGTGGCAAATGATGCTGTAGGGAGTATAAGAACAGTTGCTTCTTTCTGTTCTGAAAAGAAGGTGATGAAATTATACC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G17910.1 (Glycine max), 3'ss of exon 8
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttg-cagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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-----------------------aagagaaaactactatatggacatagatcaacagtgtgctc----tgaatgtgtttttgacgtagctatatgttaaaagtattaaaattctatttacctatcagAAACTGTATGAGGAAGCAAGTCAAGTGGCGAATGATGCTCTAGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAAAGAAGGTAATGAAATCATACG
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G17890.1 (Glycine max), 3'ss of exon 10
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC------------
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-----------------------ctatatttaatt-agtacatctttgtttctgtagt-taactaatgctaatatcatttgagcaatgtgattatgctctat-------atgtt------ccacagaaactatatgagGAAGCAAGTCAAGTAGCGAGTGATGCAGTGGGGAATATCAGAACAGTTGCCGCTTTCTGTGCTGAAGAGAAGGTGATGGAGTTATACCAGAAAAAATGTT
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G04600.1 (Glycine max), 3'ss of exon 16
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttg-cagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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----------------------aaaaaatgaacatagatcaacagtgtgacaagca-tgtgctc----tgaatatgtttttgacttagctatatgttaaaagtattaatattctatttacctgacagAAACTGTATGAGGAAACAAGTAAAGTGGCAAATGATGCAGTAGGGAGTTTAAGAACAGTTGCTTCTTTCTGTGCTGAAAAGAAGGTGATGGAATT-----
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G04610.1 (Glycine max), 3'ss of exon 9
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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---------catcttcgattatatttaatt-agtacatctt-----tgtttctgtagt-taattaatgctaatatcatttgaccaatg----------tgattattatgctctatatgttccgcagAAACTATATGAGGAAGCAAGTCAAGTAGCGAGTGATGCAGTAGGGAATATCAGAACAGTTGCCGCTTTCGGTGCTGAAGAGAAGGTGATGGAATTATACC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G04620.1 (Glycine max), 3'ss of exon 9
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgta-taatacagtcctgtttaatcaagaaaattttggat-tgttgcagAAAAA--GTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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----------------------aagggatgggaatgatgcagtag--------ggaaagtatttcgtctctgtttaattagtactattatccatttgaccaatgtttactgtgatctatatgttgcacagAAACTATATGAGGAAGCAAGTCAAGTAGCGAATGACGCAGTAGGGAATATCAGAACAATTGCCGCTTTTTGTGCTGAAGAGAAGGTAATGAACTTATACC
upper sequence: Vv05s0020g00890.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G17880.1 (Glycine max), 3'ss of exon 4
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgta-taatacagtcctgtttaatcaagaaaattttggat-tgttg--cagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
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------------------------gtggtgggaatgatatggtacgtaa------aggattttgcctctatatttaattagtactgatatccatatgaccaatatttactgtgctctatatgttgtacagAAACTCTATGAGGAAGCAAGTCAAGTAGCAAATGAGGCGGTAGGTAATATCAGAACAGTAGTCGCTTTCTGTGCAGAAGAGAAGGTGATGGAGTTATACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
tttaatcaagaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggcccaaacttcactgacaaaaaatggaattcaacttgtagctagtgatgcagtgtagtccccttcaatctaatttgtataatacagtcctgtttaatcaagaaaattttggattgttgcagAAAAAGTATGAGGAAGCAAGTCAAGTAGCCAATGATGCAGTTGGGAGTATAAGAACAGTTGCTTCTTTCTGTGCTGAAGAGAAAGTGATGCAGCTATACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT