Sequence
atgc intronic sequence ATGC exonic sequencegtggcggttacttgtctagctccgtttccacagcaatttctttacatccatctatttgcatcttcttcaacaatgttaagtgcttttctttctttctttctctctctctttttttttttcccctctaagtagACACTGAGAAGACTTGCTCAGAATAGAGAGGCAGCCCGGAAAAGCAGGCTAAGAAAAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g06160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G125934_T01 (Zea mays), 3'ss of exon 5
------------------------------gtggcggttacttgtctagctccgtttccacagcaatttctttacatccatctatttgcatcttct--tcaacaatgttaagtgcttttctttctttctttctctctctctttttttttttcccctctaa---------gtagACACTGAGAAGACTTGCTCAGAATAGAGAGGCAGCCCGGAAAAGCAGGCTAAGAAAAAAG
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gtaaatggattgtgatactctcaagtgtcaattatgatgaattatttattttttagttctacgtactatacttggaaagaacacactatactagctagtcatcaatgttttgttgcactaattttgattacgtactggttatgtgcaccacgcgctgtaatgaacacgtacagACGCTGAGAAGGCTGGCCCAGAATAGGGAGGCTGCAAGGAAAAGCAGGCTAAGAAAGAAG
upper sequence: Vv08s0007g06160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G32710.1 (Glycine max), 3'ss of exon 2
gtggcggttacttgtctagctccgtttccacagcaatttctttacatccatctatttgcatcttcttcaacaatgttaagtgcttttctttctttctttctctctctctttttttttttcccctctaagtagACACTGAGAAGACTTGCTCAGAATAGAGAGGCAGCCCGGAAAAGCAGGCTAAGAAAAAAG
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--gttaactattaattttatctttcttccatctcctttttgttttttcaagcaagttactcattttaaaacaa----aaggg------tgacaaacgatgctaacatttgcgctttaaaacgttgtgcacagACACTCAGAAGACTTGCTCAGAATAGAGAGGCAGCTAGGAAAAGCAGGCTTAGGAAAAAG
upper sequence: Vv08s0007g06160.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G29820.1 (Glycine max), 3'ss of exon 2
-gtggcggttacttgtctagctccgtttccacagcaatttctttacatccatctatttgcatcttcttcaacaatgttaagtgcttttctttctttctttctctctctctttttttttttcccctctaagtagACACTGAGAAGACTTGCTCAGAATAGAGAGGCAGCCCGGAAAAGCAGGCTAAGAAAAAAG
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gttaactattaattttttttttatatctttcttccatctccttttgtttttccaagctagttactcttttttttttaaaaaaggtggcaattgatgctaa-----tatatgcgctttaaaacgttgtgcacagACACTCAGAAGACTTGCTCAGAATAGAGAGGCAGCTAGGAAAAGCAGGCTTAGGAAAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagtgcttttctttctttctttctctctctctttttttttttcccctctaagtagACACTGAGAAGACTTGCTCAGAATAGAGAGGCAGCCCGGAAAAGCAGGCTAAGAAAAAAG
tttctttctttctttc CT-rich tract
tctcttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggcggttacttgtctagctccgtttccacagcaatttctttacatccatctatttgcatcttcttcaacaatgttaagtgcttttctttctttctttctctctctctttttttttttcccctctaagtagACACTGAGAAGACTTGCTCAGAATAGAGAGGCAGCCCGGAAAAGCAGGCTAAGAAAAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA