Sequence
atgc intronic sequence ATGC exonic sequence...ttgctgtatattgaccattttctttgataatcatcatgactcatggtcagtaacctgactattgctttcctttctttgtggggtttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAAAGCTCCGGCTGCTTTATTCGCAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA06G23080.1 (Glycine max), 3'ss of exon 6
ttgctgtatattgaccattttctttgataatcatcatgactcatggtcagtaacctgactattgctttcctttctttgtggggt--ttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAAA--GCTCCGGCTGCTTTATTCGCAA
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-agtaatttttagaatgctt-ctttagcattcaatcgctagcatgataatggagtgatctaatacacattctccatcgcaaatttattcaatttcttttcagCTTCTTCGGATTGAAGAGGAACTTGGAAGTGTGCAATATGCCGGTGAAGCTTTCAGATCACCTTAGAGTGAACACAAGTGATCTTAAAAATCTTATTCTG--
upper sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA04G24920.1 (Glycine max), 3'ss of exon 4
ttgctgtatattgaccattttctttgataatcatcatgact-catggtcagt-aacctgactattgctttcctttctttgtggggtttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAA--AGCTCCGGCTGCTTTATTCGCAA
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-atttttagaatg-cttctttagcagtcaattgctaaaattatgtgaatggttagtatgataatgaagtgatctaacacacatgtattcaatttcttttcagCTTCTTCGGATTGAAGAGGAACTTGGAAGTGTGCAATATGCTGGTGAAACTTTCAGATCACCTTAGAGTGAACTCAATTGATCCAAAAAATCTTATTCT---
upper sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA18G22780.1 (Glycine max), 3'ss of exon 7
ttgctgtatattgaccattttctttgataatcatcatgact-catggtcagt-aacctgactattgctttcctttctttgtggggtttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAAAGCTCCGGCTGCTTTATTCGCAA
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-atttttagaatg-cttctttagcagtcaattgctaaaattatgtgaatggttagcatgataatcaagtgatctaacacacatgtattcaatttcttttcagCTTCTTCGGATTGAAGAGGAACTTGGAAGCGTGCGATATGCCGGTGAAACTTTCAGATCACCTTAG----------------------------------
upper sequence: Vv17s0000g04540.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G25390.1 (Glycine max), 3'ss of exon 8
ttgctgtatattgaccattttctttgataatcatcatgact-catggtcag-taacctgactattgctttcctttctttgtggggtttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAAAGCTCCGGCTGCTTTATTCGCAA
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-atttttagaatg-cttctttagcagccaattgctaaaattatgtgaatggctagcatgataatgaagtgatctaacacacatgtattcaatttcttttcagCTTCTTCGGATTGAAGAGGAACTTGGAAGTGTGCAATATGCTGGTGAAACTTTTAGATCACCTTAG---------------------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcagtaacctgactattgctttcctttctttgtggggtttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAAAGCTCCGGCTGCTTTATTCGCAA
tttcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgctgtatattgaccattttctttgataatcatcatgactcatggtcagtaacctgactattgctttcctttctttgtggggtttcaatttggttgcagCTTTTGCGCATTGAAGAGGAACTTGGACATGTGCGTTATGCTGGTGAAGCTTTCAGATCACCCTAGGAAAAAAAGAAAGCTCCGGCTGCTTTATTCGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
-tgctgta
- - - - - - - ccatttt
- - - - - - - - - - - - - - - - -tcatgac
- - - - - - - - - - - - - - - - - - - - -catggtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggggttt