Sequence
atgc intronic sequence ATGC exonic sequencegtatttatcatgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtcatgaaaattatctgatttggattaattatttaaaataactgaaatttgcctaatgatgactttttaacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G370162_T02 (Zea mays), 3'ss of exon 6
-----------------gtatttatc-atgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtcatgaaaattatctga------tttggattaattatttaaaataactgaaat---ttgcctaatgatgacttttta------acagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
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gtattgttgcctacttgccataaatcgataggtgttcctcaggtttatatcatattttgttttg--tccaacagcaatgcatcattttttttgtatgggaaaattgtgagtgcatcattctgtattattaaagcacctttttcatttatggcatgctccacaccacagATCTGGGTCATCAGACAGCACAGCGAATCGTTCAAGCATCAGACCCTTTACAGTCAATGCAGGAAATCAATCAAAATTTCCCAAGTATAGTTTCTTCACT
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G13400.1 (Glycine max), 3'ss of exon 7
gtatttatcatgactgttgatgaaaagtatatgatttggg-gtttaaatttttgtcactattggtcatgaaaattatctgatttggattaattatttaaaataactgaaatttgcctaatgatgactttt-taacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
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gtatttaaaatatttttctcttttcctttgataattggaaagattggaagctggatcctattg-----------tagttggcttcgatgaactgcttt------ctaagttttcccccctctttccgattgtaacagATCTAGGACATCAAACTGTACAGAGAATTGTCCGTGCTTCTGATCCTCTGCAGTCAATGCAGGAAATAAATCAAAATTTCCCTAGCGTAGTTTCTTCCTT
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA08G20020.1 (Glycine max), 3'ss of exon 6
gtatttatcatgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtcatgaaaattatctgatttggattaattat-ttaaaataactgaaatttgcctaatgatgactttttaacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
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-----------------------gtattgctgtattggaatattttctttttgtgattattggaattgattgataatttattcagtttagtagggtttaatgaactgtgctgtaatatat-attttaatataacagATCTAGGGCATCAAACTGTACAGAGAATAGTCCGTGCCTCTGATCCTCTACAGTCAATGCATGATATCAATCAAAATTTCCCTAACATAGTTTCTTCTTT
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA05G30230.1 (Glycine max), 3'ss of exon 7
gtatttatcatgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtca-tgaaaattatctgatttggattaattatttaaaataactgaaatttgcctaatgatgactttt--taacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
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---------------gtatttaaaatatttttctcttttcctatga-taattggaaagattggaagctgaatcctattgcagttggcttcaatgaacagtgtt-ctaagttttttccccctctttttgatggtaacagATCTAGGACATCAAACTGTACAGAGAATTGTCCGAGCTTCGGATCCTCTGCAGTCAATGCAGGAAATTAATCAAAACTTCCCTAGCATAGTTTCTTCCTT
upper sequence: Vv12s0034g02230.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT1G71220.1 (Arabidopsis thaliana), 3'ss of exon 6
gtatttatcatgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtcatgaaaattatctgatttggattaattatttaaaataactgaaat-ttgcctaa--tgatgactttttaacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
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------------------------------------------------------------------gtactactgcatgtttcgcgtggtttaatagaaattggtatagtgtttcctaatttacctttgttccaacagATTTAGGACACCAAACAGCGCAGAGAATAGTCCATGCCTCTGATCCTCTGCAGTCTATGCAAGAAATTAATCAAAACTTTCCTAGTGTAGTTTCTTCATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggattaattatttaaaataactgaaatttgcctaatgatgactttttaacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
cttttt CT-rich tract
attaattatttaaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatttatcatgactgttgatgaaaagtatatgatttggggtttaaatttttgtcactattggtcatgaaaattatctgatttggattaattatttaaaataactgaaatttgcctaatgatgactttttaacagATTTAGGACATCAAACTGCACAGAGGATAGTTCATGCCTCTGATCCTCTGCAGTCAATGCAAGAGATCAACCAAAATTTCCCTAGTGTAGTTTCTTCCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA