Sequence
atgc intronic sequence ATGC exonic sequencegttagtaagagggaaaggaaataagcaaaagtttacctgttttgctaataagaacagatgacaaatcaattagtaatgcataaagtaaaaaatatttgtttgctcatgtggaaatttttgtgatggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g41760.1 (Oryza sativa), 3'ss of exon 5
gttagtaagagggaaaggaaataagcaaaagtttac-ctgttttgctaataagaaca-gatgacaaatcaattagtaatgca-taaagtaaaaaatatttgtttgctcatgtggaaatttttgtgatggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
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-------------------------caaagaattactctttttttaaagtcttcccatgatcataatgttcccaataaagtggtagtgcaagtaatatttct-------------gatttcctt--ttcatacccttcagGGTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCAGCCACGAAGTTGCTCAATGTGCGCATCCGGTCATTGCCATGCTTTGAGCAAGAAGGCAT
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os10g41780.1 (Oryza sativa), 3'ss of exon 5
gttagtaagagggaaaggaaataagcaaaagtttacctgt-tttgctaataagaacagatgacaaatc---aattagtaatgcataaagtaaaaaatatttgtttgctcatgtggaaatttttgtga---tggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
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----gtaagaaaagacagctttacatgaactttcatttctgcatgcttccgcatttatttctgaagtcttcagatgaaaatttgccaacagagagaagttgcgaaagtagtatttcagtttttttttgttttcataaccttcagGTTGGGAGTATTCAACTGATGGAAAATGTGAGAAAATGCCATCCACAAAGATGCTCAACGTGCGCATCCGGTCATTACCATGCTTTGAGCAAGAAGGAAT
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G038487_T01 (Zea mays), 3'ss of exon 5
gttagtaagagggaaaggaaataagcaaaagtttacctgttttgctaataagaacagatgacaaatcaattagtaatgcataaagtaaaaaatatttgtttgctcatgtggaaatttttgtgatgg-atgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
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-----------------------------gttttgacattcttattgct-----ctcttgtgatgtcgtttatca---cagaaaggcaaggacgatgcataatgaacgtctatgattt-ataatggtatgttcttcagGTTGGGAGTACTCTACTGATGGGAAATGTGAAAAAATGCCATCAACAAAGATGCTCAACGTGCGCATCCAGTCATTGCCATGCTTTGAGCAGGAAGGAAT
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G42840.1 (Glycine max), 3'ss of exon 5
gttagtaagagggaaaggaaataagcaaaagtttacctgttttgctaataagaacagatgacaaatcaattagtaatgcataaagtaaaaaatatttgtttgctcatgtggaaatttttgtgatggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
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-------------------------------atcaaaagatacacatacatgaaaatatatcctagcaatgagttatat-----gttatacacattaaaacttacaggttgaaaatatc-taattgtttgatgttagGCTGGGAATATACTACTGATGGAAAATGTGAGAAAATGCCGTCTACTCGACTGCTAAATGTGAAGATAAAGTCATTGCCATGTTTTGAAACAGAGGGGAT
upper sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA06G11920.1 (Glycine max), 3'ss of exon 5
------------------------------------------gttagtaagagggaaaggaaataagcaaaagtttacctgttttgcta-ataagaacagatgacaa-atcaattagtaatgcataaagta--aaaaatatttgtttgctcatgtggaaatttttgtgatggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
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gttagtagtcagtgaatgatgactcttaactccaacttatggaattttctgctccaatacatgatagcaatgagttatatgcactggtagatacacatacatgaaaatatatcctagcaatgagttatatgctatacgcattaaaacatacaggttaaaaatatc-taatggttggatgttagGCTGGGAATATACTACTGATGGAAAATGTGAGAAAATGCCATCTACTCGACTGCTAAATGTGAAGATAAAGTCATTGCCATGTTTTGAAAAAGAGGGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtaaaaaatatttgtttgctcatgtggaaatttttgtgatggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
aaaaatatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtaagagggaaaggaaataagcaaaagtttacctgttttgctaataagaacagatgacaaatcaattagtaatgcataaagtaaaaaatatttgtttgctcatgtggaaatttttgtgatggatgaacttcagGGTGGGAGTACTCAACAGATGGGAAATGCGAGAAAATGCCGTCAACACGATTGCTTAATGTAAAAATAAAATCATTGCCGTGTTTAGAGCAAGAGGGAAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG