Sequence
atgc intronic sequence ATGC exonic sequence...ttatatttttcctcaaattttctgagaaccaaacatagcctttatgttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g01800.1 (Oryza sativa), 3'ss of exon 6
ttatatttttcctcaaattttctgagaaccaaacatagcctttatgttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
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gtaggccatttct----ttttatcataaactattagtcacttggagtaact----agtgagtatatcatattatctcaaaaaaaaaaatctttc----agGCATTTGATCAGCAGCAACAAGATTTAATTGATGCAGCATCAAAAGCTTTATCATATAGACAAGATATTATTGAGGAAAACATCCGTCTGGCATATGCAG
upper sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os05g01060.2 (Oryza sativa), 3'ss of exon 6
ttatatttttcctcaaattttctgagaaccaaacatagcctttatgttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
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------------gtaagtattttg----tcttatcaggtattgaaaaatctcttggag-----tacaacaccattttacaatgcatctgttttc----agGCATTCGATCAGCAGCAACAAGATTTGGTTGATGCTGCATCAAAAGCTTTATCCTACAGACAAGACATTATTGAAGAAAATATCCGTCTGACATATGCCT
upper sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G036206_T01 (Zea mays), 3'ss of exon 6
ttatatttttcctcaaattttctgagaaccaaacatagcctttatgttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
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-----------gtaagatgttcattttatcgaaagaga-----ataattccttggagtgtgtctatca-----tctcatcttaatagttgttttc---agGCATTTGACCAGCAGCAGCATGATTTAATTGATGCAGCTTCAAAAGCTTTGTCATACAGGCAAGATATTATTGAGGAAAACATTCGTCTCACGTATGCGT
upper sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G08440.2 (Arabidopsis thaliana), 3'ss of exon 6
-ttatatttttcctcaaattttctgagaaccaaacatagcctt----tatgttttttttgagggggtt----catggaaagttt------ttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
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gtta-gcttttctttttatctattacaaaatatgtgtaactttatcttgtgacgaattatagttacttattctgttaaccacttagggggtaatttatctttcttgttgtgacagGCATTTGACCAACAACAACAAGACCTTGTTGATGCTGCATCAAAAGCTCTTTCTTACAGACAAGAGATCATTGAGGAAAATATACGCCTAACATATGCCT
upper sequence: Vv07s0130g00420.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT5G23490.1 (Arabidopsis thaliana), 3'ss of exon 6
ttatatttttcctcaaattttctga---gaaccaaacatagcctttatgttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
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gtaggcctttccttttttttacttatctgttttattcatctcgtattaaatgtatttaatttaattgtttggaagctgaaaga-ttgttgctgttgtaaccagGCATTTGATCAACAGCAACAAGATCTTGTTGATGCTTCATCAAAAGCTCTCTCTTACAGACAAGAGATAATTGAAGAAAATATACGCCTAACATATGCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
tttttgtccttcttct CT-rich tract
aaagttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatatttttcctcaaattttctgagaaccaaacatagcctttatgttttttttgagggggttcatggaaagtttttgtccttcttcttcttcttgctagGCTTTTGATCAACAACAACAAGATCTTGTTGATGCGGCCTCAAAAGCTCTTTCATACAGACAAGACATTATTGAGGAAAACATTCGTCTCTCATATGCAT
- - - - - cctcaaa
- - - - - - - - - - - - - - ccaaaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - gaggggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ttcatgg