Sequence
atgc intronic sequence ATGC exonic sequencegtggcaccaaatatttatttgtttttttctataactcatgactttacttttgctacagtatctcattggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os04g54340.1 (Oryza sativa), 3'ss of exon 9
gtggc-accaaatatttatttgtttttttctataactcatgactttacttttgctacagtatctcattggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
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gtaatgacttggattttatttgatttcttttttaaaaaataacgtgaatatgcacttgtcatatgatcaa---ttgttt--------atagGAGGTACCTGGGATGGGTTTTCACATCACTCAACCAGGCTCATCAGTTGCAACCTCCCTGATTGATGGTGAAGCAAAACCAAAGCATGTTCTCTTGTTAG
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G309109_T01 (Zea mays), 3'ss of exon 8
-------------------------------------------------------------gtggcaccaaatatttatttgtttttttctataactcatgactttacttttgc-tacagtatctcattggaggtcgttttg----ctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
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gtaaaactgattgatccacaggtaaaacaagacatattagtatttaaaaagagggcaagaggtgcaatttagcatatgtatttttagtcaagtgttctgtctttccgcttttgtatttaattttaactttgttttccttctatcaactactcacagGAGGTTCCTGGAATGGGTTTCCATATCACCCAACCAGGTTCCTCAATTGCTACCTCACTGATCAATACTGAAGCAAATCCAAAACATGCGCTCTTTCTGG
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G34750.1 (Glycine max), 3'ss of exon 3
---gtggcac-caaatat-ttatttgtttttttctataact--catgactttacttttgctacagtatctca---ttggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
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tggttgacccgcaggtgtgctaattatacttgtcttaaatgggcccagattgacatatgttgtgttctgcaaaattaatatgtattttaattttctccagGAAGTTCCAGGAATGGGATTTCACATTTCACAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCAAAGCCGAAGCATGTACTTCTTCTGG
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA14G12420.1 (Glycine max), 3'ss of exon 4
gtggcaccaaatatttatt-tgtttttttctataactcatgactttacttttgctacagtatctca---ttggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
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--------gtgtgctaattatacttgtcttaaatgggctcagattgacatatgttgtgttctgcaaaagtaatatgtattttaattttctccagGAAGTTCCAGGGATGGGATTTCACATTTCGCAACCAGGGTCATCAGTTGCTACATCACTTATTGATGGAGAATCCAAGCCGAAGCATGTACTTCTTCAAG
upper sequence: Vv19s0014g03680.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G54260.1 (Arabidopsis thaliana), 3'ss of exon 9
------gtggcaccaaatattt--atttgtttttttctataactcatga-ctttacttttgctacagtatctca-ttggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
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gtccatgaaaaatttgatttttggagttattgcatttaaataagagtgagccacaatgttacttgcctctttgagctaaaagctattaaacttttga-agGAGGTATCTGGAATGGGCTTCCACATCACACAACCAGGATCTTCTGTGGCAACATCACTTATTGATGGGGAATCGAAGCCAAAACATGTTCTTCTCTTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcatgactttacttttgctacagtatctcattggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
ttttgcttt CT-rich tract
tttactttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggcaccaaatatttatttgtttttttctataactcatgactttacttttgctacagtatctcattggaggtcgttttgctttgaacagGAGGTTGCAGGTATGGGTTTCCACATTACCCAACCAGGCTCTTCCATTGCAACATCACTGATTGATGGAGAGTCAAAGCCGAAGCATGTACTACTTTTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA