Sequence
atgc intronic sequence ATGC exonic sequencegtgagttgcaaagccctttagtattattgatcatctacaaatttgtttcactaaattttttccttctgttggttgtcaacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G01390.1 (Glycine max), 3'ss of exon 1
--------------------------------gtgagttgcaaagccctttagtattattgatcatctacaaatttgtttcactaaattttttccttctgttggttgtcaacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
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gtgagttattaaccaaacaagtttagttttttgtcatgtcaaattcatgtttataatccttgtgtctaacacttttttgtccctgaaattttac-----aataactgaaaacagGTTAATGTGTCTGGCACTGTAGCCTATGTTTCTCAAACTTCTTGGATACAAAGTGGGACAGTTCGAGATAATATACTCTTTGGAAAGCCAATGGACAAAA
upper sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G20360.1 (Glycine max), 3'ss of exon 1
gtgagttgcaaagccctttagtattattgatcatc--------tacaaatttgtttcactaaattttttccttc-tgttggttgtcaacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
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gtgagttattaaccatacaagtttagttttttgtcatgccaaattcatatttatatttttgtccttgatatttcatgataatggtaaacagGTGAATGTAGGTGGCACAATAGCCTATGTTTCTCAAACTTCTTGGATACAAAGTGGGACAGTTCGGGATAATATACTCTTCGGAAAGCCAATGGACAAAA
upper sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G20780.1 (Glycine max), 3'ss of exon 3
-------------------------------------gtgagttgcaaagccctttagtattattgatcatctacaaa---tttgtttcactaaattttttccttctgttgg--ttgtcaacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
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gtgagttattgatcatccaaatttagtatattataacattaaacatgaagcaacttagtaattttaatgactattaaactctttatttatttttcttttttgctcttgtgaaaatggaaaacagGTTAGTGTATGTGGAACACTTGCCTACGTTTCCCAAACTCCTTGGATCCAAAGTGGTACAATTCGTGATAATATTCTCTATGGAAAACCAATGGATGAAA
upper sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G20770.2 (Glycine max), 3'ss of exon 1
gtgagttg-----caaagccctttagtattattgat--------cat-ctacaaatttgtttcactaaattttttccttctgttggttgtca------------acagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
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gtgagttactaaccaaaagactctagtttttgtcatgtcaaattcatgtttctaatcttgctaactaacactttttcctccctgaatcttcacaataatggaaaacagGTTAATGTGTGTGGCACCATAGCCTATGTTTCTCAAACTTCTTGGATACAAGGTGGGACAGTTCAAGATAATATACTCTTCGGCAAGCCAATGGACAAAA
upper sequence: Vv09s0002g02440.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G21250.2 (Arabidopsis thaliana), 3'ss of exon 2
--------gtgagttgcaaagcc---ctttagtattattgatcatctacaaatttgttt-cactaaattttttccttctgttggttgtc---aacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
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gtaagcaaatcagccaccaagactgactttcacttttttcattagatatacatttgtttgttccaaatgtttcctttacgttgtccaattgaaacagGTAAAGGTCTTTGGGTCCATCGCTTATGTTTCTCAGACTTCTTGGATCCAAAGTGGTACCATCCGGGACAATATCCTCTATGGAAAGCCCATGGAAAGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatcatctacaaatttgtttcactaaattttttccttctgttggttgtcaacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
cactaaa putative branch site (score: 2)
aaatttgtttcactaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttgcaaagccctttagtattattgatcatctacaaatttgtttcactaaattttttccttctgttggttgtcaacagGTTGATGTATTTGGTTCAATCGCCTATGTTTCTCAAACTTCTTGGATCCAAAGTGGGACAATTCGCGACAACATTCTTTATGGAAGGCCAATGGATAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG