Sequence
atgc intronic sequence ATGC exonic sequence...ttcatttgaagcaaagtatttttttttgtttaacttcttggatatttacaagtaaattatttatttttgagcttctttgtctcgatcccatgttgtacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0146g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g01295.1 (Oryza sativa), 3'ss of exon 2
-------------------ttcatttga-agcaaagtatttttttttg-tttaacttcttggatatttacaagtaaattatttatttttgagcttctttgtct-cgatc-------ccatgttg--tacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
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gtaaagcccgtgtgaatgttctgcatgatagtttgctagtcaccatagatctggcacttttatcttgcatctctgtttcatagttttctcagcacttttatctgcaatctaacaggcccttttgtttgtagGTGCAAGCACATGGAGCGGATGCAATGGTTGATGAGGACAACTGTGTGTTCTTCCTACCACACCGCCCTAGAGGAGAAATTTGCGAGCCGCCGATTTTTC
upper sequence: Vv01s0146g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G081521_T01 (Zea mays), 3'ss of exon 2
--------ttcatttgaagcaaagtatttttttttgtttaacttc-ttggatatttacaagtaaattatttatt-tttgagcttct-ttgtctcgatcccatgttgtacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
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gtaagtatttgaacatatatgatatgttgctactagtttatctctatttgatatagctgaa-atagcatttgtaatatgatcttgggccgttttctttgtgcattg-atagGTGCAAGCCCATGGAGCGGATGCAATGGTTGACGAGGATAACTGTGTGTTCTTCCTCCCACACCGTCCTCGAGGAGAAGTTTGCGAGCCACCGATTTTTC
upper sequence: Vv01s0146g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA02G10730.1 (Glycine max), 3'ss of exon 2
ttcatttgaagcaaagtat-ttttttttgtttaactt--cttggatatttacaagtaaattatttatttttgagcttcttt-gtctcgat---cccatgttgtacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
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-------ggaaaaattcatcttttttttgtgcagtttagtttttgtacatgtgggtgggtaattttcggtcaccatgcttccatctgaatttgctcatcattttcagGTGCAAGCACATGGTTCAGATGCCATGGTCGATGAAGAAAATTGTGTTTTCTTCCTTCCACATCGTCCAAGGAGCCGAATTAATGAACCTCCTTTTTTCC
upper sequence: Vv01s0146g00020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G52090.1 (Glycine max), 3'ss of exon 1
--ttcatttgaagcaaagtatttttttttgtt-taacttcttggatatttacaagtaaattatttatttttgagcttctttgtctcgatcc---catgttgtacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
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ggtgcagaggcaaaaattaatctttttgtgctgttagtttttgtacatgtg---ggtaattgtcggtcaccatgcttcc--atctgaatttggtcatcattttcaGGTGCAAGCACATGGTTCAGATGCCATGGTCGATGAAGAAAATTGTGTTTTCTTCCTTCCACATCGTCCAAGGAGCCGAATTACTGAACCTCCATTTTTC- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacaagtaaattatttatttttgagcttctttgtctcgatcccatgttgtacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
taaattatttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttcatttgaagcaaagtatttttttttgtttaacttcttggatatttacaagtaaattatttatttttgagcttctttgtctcgatcccatgttgtacagGTGCAAGCACATGGATCAGATGCAATGGTTGATGAGGAAAATTGTGTTTTCTTCTTACCACATCGTCCGAGAGGTCGAATTTGTGAACCTCCCTTCTTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - aagcaaa
- - - - - - - - - - - - - - - - - ttcttgg
- - - - - - - - - - - - - - - - - - - - - - - - -aagtaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatccca