Sequence
atgc intronic sequence ATGC exonic sequence...ttcaacttgtaaatgtttaccatttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA18G42540.1 (Glycine max), 3'ss of exon 5
-------------------------------------------------------------ttcaacttgtaaatgtttaccatttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
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gtaagttttattcaggttacgatttttctgaaaatatttaccattttagattgcgtgtcacttctacttagaatcattt-tgatatgatgctgtgaagtcagaactgctctatatgttaaatcatgtattgcttatggctgat-cttgtttagt-ctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA07G17680.1 (Glycine max), 3'ss of exon 4
---------------------------------------------------ttcaacttgtaaatgtttaccatt-tttcaatttgatgctagaattaca-aggtataccaactagtgc---ttgaacagaatct-----tattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
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gtaagttttattcaggttacagattctctgaaaatatttaccattttagattgcatgttacttctgtttacaattattctgatatgatgctatgatgtcagaactgcttcaagttatacaaatcatgtatagcttatggctgatcttgtttagt-ctccagGTACATTCCAAGATATACCTTTAGCTGGCTGGTGAAACCCATGTGGTTGATCATAA
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G27840.1 (Glycine max), 3'ss of exon 5
-----ttcaacttg-taaatgtttaccat-ttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
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cacatttcaattttctgaatgtatttcatatttgcaaagctatgtctggacttctgattaaatccacaagttcttgtggttgatcttaat-------tgttgttcagATACATTCCAAGATACACCTTTAGCTGGCTGGTGCAACCCATGTGGTGGGTCATAA
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G14200.1 (Glycine max), 3'ss of exon 5
-------ttcaacttg-taaatgtttaccatttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
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ctcacatttcaattttctgaatgtatttcatatttgcaaa-gctgtctgggcttcagattaaatccactagttcttgtggttgatcttaat-------tgtttttcagATACATTCCAAGATACACCTTTAGCTGGCTGGTGCAACCCATGTGGTGGGTCATAA
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G01220.1 (Arabidopsis thaliana), 3'ss of exon 5
ttcaacttgtaaatgtttaccatttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
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------------gtaagtacc-tttttctgcctcatttcacaatgttgttataaaaaaatttttgtctaaga------ttaagcttgtgttgatgtgcagATACATCCCAAGATACACTTTTAGTTGGTTGGTAAAACCAATGTGGTCTATAATAA
upper sequence: Vv08s0007g01940.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: PP1S83_95V6.1 (Physcomitrella patens), 3'ss of exon 6
--------------------------------------------ttcaacttgtaaat--gtttaccatt--tttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatctt------attcttg--------ctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
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gtgagggacgcccccccttgctgttgttcgtcgtttaatttctgtacccattgcaaactagcatacaactacttcggattgaatctcatgctcacatgactttcatccgagtattcatatcaattttttgtataattcttgatggacaactctgttctgcagGTATATTCCAAAATACACCTTTAGTTGGCTTGTCAAGCCAATGTGGCTAGTTATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
tcttattcttgcttt CT-rich tract
aatcttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcaacttgtaaatgtttaccatttttcaatttgatgctagaattacaaggtataccaactagtgcttgaacagaatcttattcttgctttgttctgcagATATATCCCAAGATACACCTTTAGTTGGTTGGTGAAACCCATGTGGTTGATCATAA
- - - - - - - - - -ccatttt
- - - - - - - - - - - - - - - - tgatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ccaacta
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aacagaa