Sequence
atgc intronic sequence ATGC exonic sequence...ctgttcaattttaccatcatttgtgtgtttcaaaaaaattctttttgagaatttttattagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA03G34140.1 (Glycine max), 3'ss of exon 7
ctgttcaattttaccatcatttgtgtgtttcaaaaaaattctttttgagaattt----ttattagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT
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---agctatcatgtcatgttgtgtagtgaactcattaattttttatgatcctttaactgtcttggtgatgtt-ctctttttctttactctgttccatagctcagGTTTGGCAATCTTGAGGATCTGTTGGGACCTTATTTGTGTAGGAAGCTGCATTCAATTGGTTGGTCTGTGTTACAACATTCTGCTGTGCACAACAAT
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 8
ctgttcaattttaccatcatttgtgtgtttcaaaaaaattctttttgagaattt----ttattagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT
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---tatcatgtcaagctgtgtagtgaactactaattaattttttatgatcctttaactgtattggtgatgtt-ctctttttctttactctgttccatagctcagGTTTGGCATTGTTGAGGATCAGTTGGGACCTTATTTGTGTAGGAAACTGCATTGCATTGGTTGGTCTGTGTTTCAACATTCTGTTGTGCACAACAAT
upper sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------------------------------------------------------------------------ctgttcaattttaccatcatttgtgtgtttcaaaaaaattctttttgagaatttttat--------tagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT
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gtaagtcattaattcttactatcaggctctgtacttgaaagtatttatgttgaaagaacattatggcatgctagatatatatcaagcaatgacagtagacttaggccaac---catatgttg-aaaagggccctgcttggttacttatatactaagtgtgatgaagttcttccgacccatttatctgttccatagctcagGTCTGGCACTGTTGAGGATCAATTAGGACTGTCTTTGTGTAAGAAGTTGACTTCTGTCGGTTGGTCGGTGCAACAAACCACTGTCCTTCGGAATGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgagaatttttattagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT
ttctgat putative branch site (score: 3)
tttttctatctattcc CT-rich tract
atttttattagtgaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctgttcaattttaccatcatttgtgtgtttcaaaaaaattctttttgagaatttttattagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT
- - - - - - accatca
- - - - - - - - - - -tgtgtgt
- - - - - - - - - - - - - - - -aaaaaaa