Sequence
atgc intronic sequence ATGC exonic sequencegtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacattgtcctatgatttttgtttaatatctgcaattcctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os07g40700.2 (Oryza sativa), 3'ss of exon 3
gtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacattgtcctatgatttttgtttaatatctgcaattcctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
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--------------------------------------------------------agagagtactcagtata-tcacactaacttaggggaatttatt--tttcagtatacttgtggagctacttgtatattaactagccattctacttct--atggcagGGGCATAAGTGATGATGCTTTAAAGTTGTCAGACTTGCACTGCAGTGTTCCTATGAAAGGCATGGTGGATTCTTTTAATGTATCTGTTGCAGCTGGAATC
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G026869_T03 (Zea mays), 3'ss of exon 3
gtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacattgtcctatgattt--ttgtttaatatctgcaattcctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
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---------------------------------------------------------tgtatgcatttatttccat---catgatacatagat-tagctgatacattaatattt-cattgtacaacgaaaaagttgggtattaacta-attctttggtggcagGGGTATAAGTGATGATGCTCTAGAATTGTCAGATTTGCACTGCAGCATTCCAATGAAAGGCATGGTGGATTCGTTTAATGTATCTGTTGCAGCTGGAATC
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G26320.1 (Glycine max), 3'ss of exon 3
------------------gtgatcatcctctttttttatctacagc--------tctgttcacaa-----aattgaaatctattcagttacat---catttgatctacttgttctttttccagacacatggttgatatctatttattgacattgtcctatgatttt-----tgtttaatatctgcaattcctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
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gttatttccttcattttcctgatgctcaatgtttgttgttcatggagtactgagtctgctgactattagtagtcagaggataaccaactgtctctacattgaattaaaatattaaataattct-catatttcctgtaacttaggttttactttctgctcaggttttgtatgtatttaacagtggctatttcttgttgcagGGGTATTAGTGATGAGGCATTGGAGCTGTCAGATTTGCATTGCAGTATTCCTATGGCAGGAATGGTGGACTCTTTCAATGTTTCAGTTGCTGCGGGAATC
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G49880.1 (Glycine max), 3'ss of exon 3
gtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacattgtcctatgatttttgtttaatatctgcaattc-ctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
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-----------------------------------------------------gaattaaaatattaaat--aattcttatatttcctgtgacttaggtcttactt-tctgctcaggtt-ttgtatg-----tatttaacggtggctattttctttttgcagGGGTATTAGTGATGAGGCATTGGAGTTGTCAGATCTGCATTGCAGTATTCCTATGGCAGGAATGGTGAAGTCTTTCAATGTTTCAGTTGCTGCAGGAATC
upper sequence: Vv14s0108g01380.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G15390.1 (Arabidopsis thaliana), 3'ss of exon 4
gtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacatt-gtcctatgatttttgtttaatatctgcaattcctgatg-acagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
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-----------------------------------------------------------------------------------------gta-atgaatatcatctcttagtccaaatttgagggttcataatttcttaatggattgattggggaatatgcagGGGAATAAGTGACGAAGCGTTGGAGTTATCAGATCTGCGTTGCAGTATTCCGATGAATGGAATGGTTGATTCGTTTAATGTCTCAGTGGCTGCAGGGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atttattgacattgtcctatgatttttgtttaatatctgcaattcctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
ttcct CT-rich tract
tatgatttttgtttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatcatcctctttttttatctacagctctgttcacaaaattgaaatctattcagttacatcatttgatctacttgttctttttccagacacatggttgatatctatttattgacattgtcctatgatttttgtttaatatctgcaattcctgatgacagGGGAATAAGTGATGAAGCTCTAGAATTGTCAGATTTGCATTGCAGTATTCCAATGAAAGGCATGGTGGACTCCTTCAATGTTTCAGTTGCTGCTGGGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT