Sequence
atgc intronic sequence ATGC exonic sequencegtcggtacttttttgatttttttgatcatgtgttaaattcttgaactttatcaaatgtcttttctcctttacccatgtctttttatgtttaaaagatggggggaaaaaaaaccttctcatccatctttggaataatattatattaagggattcatgtaatttcagttttacaagcttagttctgcttgtaacagTTACTGATGAAGAGGGTTTGCAACATGTTAATGAAGAGATGGAGGCCAAGACTGTTGCTCCATTTACATCGGACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G39280.1 (Glycine max), 3'ss of exon 3
gtcggtacttttttgatttttttgatcatgtgttaaat---tcttgaactttatcaaatgtcttttctcctttacccatgtctttttatgtttaaaagatggggggaaaaaaaaccttctcatccatctttggaataatattatattaagggattca--tgtaatttcagttttacaagcttagttct-gcttgtaacagTTACTGATGAAGAGGGTTTGCAACATGTTAATGAAGAGATGGAGGCCAAGACTGTTGCTCCATTTACATCGGACAG
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gtcggtactttttta--tttctcgacaatgtgtttaataaccattatgtttttgtcattgttgttttttttgtatcttttcgttgttgttcattcatgataaaaggataagatacagaaggttctatggttccgcggccactgatttctttgttttggttttgaagttgaatttacaaactaggtttttaatcttaacagTTTCTGATGAGGAGGCTTTGCAACATGTAAATCAAGAGATGGAGGCCAAGGCTGCTGCTCCATTTACATCAGACAG
upper sequence: Vv07s0031g00640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G05990.1 (Glycine max), 3'ss of exon 3
gtcggtacttttttgatttttttgatcatgtgttaaattcttgaactttatcaaatgtcttttctcctttacccatgtctttttatgtttaaaagatggggggaaaaaaaaccttctcatccatctttggaataatattatattaagggattcatgtaatttcagttttacaagcttagttc---tgcttgtaacagTTACTGATGAAGAGGGTTTGCAACATGTTAATGAAGAGATGGAGGCCAAGACTGTTGCTCCATTTACATCGGACAG
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---------------------------------------------------------------------------------------------gaataagacacagaaggttctatggttccgcggccactctgatttctttgttttggttt----taaagttgaatttacaaactaggtttttataatcttaacagTCACTGATGAGGAGGCTTTGGAGCATGTAAATCAAGAGATGGAGGCCAAGGCTGCTGCTCCATTTACATCAGACAG
upper sequence: Vv07s0031g00640.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G36980.3 (Arabidopsis thaliana), 3'ss of exon 3
gtcggtacttttttgatttttttgatcatgtgttaaattcttgaactttatcaaatgtcttttctcctttacccatgtctttttatgtttaaaagatggggggaaaaaaaaccttctcatccatctttggaataatattatattaagggattcatgtaatttcagttttacaagcttagttctgcttgt-aacagTTACTGATGAAGAGGGTTTGCAACATGTTAATGAAGAGATGGAGGCCAAGACTGTTGCTCCATTTACATCGGACAG-
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--------------------------------------gtcggtacctttttaactacattttcttccg-ataaatttgtttcttttttcgatctttgaatcaaa---------tttaagggaa----aaaacagtcgtagaatcgaaaattcgagtaactgag-----acaagggtcactgggataatgaacagTTTCTGATGAGGAGGGTTTGCAACATGTCCATCAAGAGCTCGAGGCCAAACTTGCTGCTCCCTTC-CTTGGGACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atattaagggattcatgtaatttcagttttacaagcttagttctgcttgtaacagTTACTGATGAAGAGGGTTTGCAACATGTTAATGAAGAGATGGAGGCCAAGACTGTTGCTCCATTTACATCGGACAG
ttctgctt CT-rich tract
taatttcagtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcggtacttttttgatttttttgatcatgtgttaaattcttgaactttatcaaatgtcttttctcctttacccatgtctttttatgtttaaaagatggggggaaaaaaaaccttctcatccatctttggaataatattatattaagggattcatgtaatttcagttttacaagcttagttctgcttgtaacagTTACTGATGAAGAGGGTTTGCAACATGTTAATGAAGAGATGGAGGCCAAGACTGTTGCTCCATTTACATCGGACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG