Sequence
atgc intronic sequence ATGC exonic sequencegtagtttgctttcttgaaccacagatttaatgaaatcctcatatatttatctctctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagattttcaatacatagtattgacaatggtcctgttctgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA19G40500.1 (Glycine max), 3'ss of exon 5
gtagtttgctttcttgaaccacagatttaatgaaatcctcatatatttatctctctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagattttcaatacatagtattgacaatggtcctgttctgctc---cagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
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gtaatggaattttccgaatcatggtttcagcttt-ttagcattgaatgttacatgttttttttgttc-tattattgacttattgttctt------agtata-------gttttctcaaaacgtgttttatgccctaaattgaaatcggccttgatttggcccggcagGTCCCTTGGGAATCAACTGTCCTTTGGATTGGGACACCAGAATGAAGATTGCGCTGGATGCTGCGAGGGGACTTTCATACCTGCATGAAGACTCACAGCC
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA03G37910.1 (Glycine max), 3'ss of exon 6
gtagtttgctttcttgaaccacagatttaa-tgaaatcctcatatatttatctctctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagattttcaatacatagtattgacaatggtcctgttctgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
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gtaatgtaatttttcgaatcatgggttcagcttttagcattgtatggtacatgctttctttgtt----ctattattgacttattgtacttagtatagttttctcaatgtgtgtttt----atgccttaaac---tgaaatcggccttgattttgcccggc---agGTCCCTTGGGAATCAATTGTCCTTTGGATTGGGACACCAGAATGAAGATTGCGCTTGATGCTGCAAGGGGACTTTCATACCTGCATGAAGACTCACAGCC
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA10G01520.1 (Glycine max), 3'ss of exon 4
gtagtttgctttcttgaaccacagatttaatg-aaatcctcatatatttatctct-ctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagat-tttcaatacatagtattgacaatggtcctgttctgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
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--------------------------gtaatataatttctcaaatgatggcaccagctctgtaatcttgaaattacatgtttttcttcttccaag----tttacaataatgttggttcagaaactattttattatgcttaattgaaattggccttggtttttcctagGTCCCCTGGGAATAAATTGCCCCTTGGATTGGGACACTAGAATGAAGATCGCCCTTGATGCTGCAAGAGGACTTGCATACCTGCATGAAGATTCACAGCC
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G01480.1 (Glycine max), 3'ss of exon 4
gtagtttgctttcttgaaccacagatttaatg-aaatcctcatatatttatctct-ctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagattttcaatacatagtattgacaatggtcctgttctgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
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--------------------------gtaatataatttctcaaatcatggcatcagctctgtaatcttgaaatgacatgttttgcttcttccaaa----tttacaataacgt--ttaagaaagtattttactgtgcttaattaaaattggccttgatttgtcctagGTCCGCTGGGAATAAATTGCCCTTTGGATTGGGACACTAGAATGAAGATCGCCCTTGATGCTGCAAGAGGACTTGCATACATGCATGAAGATTCACAGCC
upper sequence: Vv07s0005g01590.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G02010.1 (Arabidopsis thaliana), 3'ss of exon 5
gtagtttgctttcttgaaccacagatttaatgaaatcctcatatatttatctctctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagattttcaatacatagtattgacaatggtcctgttc-tgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
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-------------------------------------gtaatatctcctctttgcttcccttgctgcctatttttagatctg-acattgtcaaaagtagtta----ttgtacactgagttcatctacaaga-gtggt-ttatttaagtcattgtttatgcttcagGGCCTCTCGGGTTGAACTGTCCTCTTGATTGGGACACCAGAATGAAGATTGCACTTGATGCTGCAAGAGGACTTGCATACCTTCATGAAGACTCGCAACC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacttttgggagattttcaatacatagtattgacaatggtcctgttctgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
tattgac putative branch site (score: 2)
tcctgttctgctcc putative PPT
attttcaatacata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagtttgctttcttgaaccacagatttaatgaaatcctcatatatttatctctctttccattgtccctattatggattgtgtatcttggaaaaaaatataaaactctgtacttttgggagattttcaatacatagtattgacaatggtcctgttctgctccagGCCCTCTGGGAGTCAACTGTCCTTTGGATTGGGACACCCGAATGAAGATTGCTCTTGATGCTGCCAGAGGGCTTGCATACCTGCATGAGGATTCACAACC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT