Sequence
atgc intronic sequence ATGC exonic sequence...cgttcgcttcctttgttctttctaacaaatcctctaatactgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 4
cgttcgcttcctttgttctttctaacaaatcctctaatactgggttgaacagtattacagagtatta-aattaattatg----atgg--acttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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-------catttagatttacttcaagaaatctgctcaacttatcttaaaaaaatttatgttgtttgagagatggttttgtgacatagtaaattgtcgtggttatcagGTGGATATGATAAGGAAGAAAAGGCCGCGAGAGCTTATGATTTGGCAGCTCTAAAGTACTGGGGTCCCACTGCTACCACCAACTTCCCT
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 3
---cgttcgcttcctttgttctttctaacaaatcctctaatactgggttgaacagtattacagagtattaaattaa-ttatgatggacttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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aaatgtt-gctacttaattttatttttggtcgtttcccaacttatttttaaact---tgatactgtttgaaattaaattgtggtgattattaatttattatcagGTGGATATGACAAGGAAGATAAGGCTGCGAGGGCTTATGATTTAGCAGCTCTAAA----------------------------------
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G33240.1 (Glycine max), 3'ss of exon 4
-----cgttcgcttcctttgttctttctaacaaatcctctaatactgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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atttatatttacttcaagaatgctcctcaacctatcct--aaagcttttttctgtattttgagagatggttttgtaa--catagtgaa-ttgtcttgtttatcagGTGGATATGATAAGGAAGAAAAGGCCGCTAGATCTTATGATTTGGCAGCTCTGAAGTACTGGGGTCCCACTGCTACCACCAACTTCCCT
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 4
cgttcgcttcctttgttctttctaacaaatcctctaat-actgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattat-cagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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-----gtatacttgggtaag---aacaaatatcttaatcagtcagcatgtgaataatgttgaatat-gtatctgtggtgtctaactt-tgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G10510.1 (Arabidopsis thaliana), 3'ss of exon 4
cgttcgcttcctttgttctttctaacaaatcctctaat-actgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattat-cagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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------------------gtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatat-gtatctgtggtgtctaactt-tgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G10510.2 (Arabidopsis thaliana), 3'ss of exon 3
cgttcgcttcctttgttctttctaacaaatcctctaat-actgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattat-cagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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aatcaacagtatacttgggtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatat-gtatctgtggtgtctaactt-tgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
upper sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G65510.1 (Arabidopsis thaliana), 3'ss of exon 4
cgttcgcttcctttgttctttctaacaaatcctctaatactgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
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----------------gtaagcaagataatattctattgacaaattaattgatat-atcgagtatggca--aatgatgtccatctttgattaatt-caagGTGGATATGACAAGGAAGATAGAGCAGCTAGAGCCTATGACTTGGCAGCTTTAAAATACTGGGGTTCTACTGCTACTACAAATTTTCCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgaacagtattacagagtattaaattaattatgatggacttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
aattaat putative branch site (score: 3)
tattacagagtattaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgttcgcttcctttgttctttctaacaaatcctctaatactgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattatcagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC