Sequence
atgc intronic sequence ATGC exonic sequence...ttgggaaccacaatggaggcgtagtatggtagagatcttggtgggttttatttgaggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G10330.1 (Glycine max), 3'ss of exon 1
ttgggaaccacaatggaggcgta-gtatggtagagatctt-----ggtgggttttatttgaggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
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---gtactctttctctcgccttccgttttgctgatatcttttaactgagaatgttatgttgaatttgaagag----caattacattttttctt----tttttgcagAAGTGGAAATGATGAAGGAGAGGTTCGCTAAGCTGCTTCTGGGAGAGGATATGTCTGGTGGTGGAAAAGGGGTGTGTACTGCACTTGCAATCTCCAATGC
upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G02620.1 (Glycine max), 3'ss of exon 1
-------ttgggaaccacaatggaggcgtagtatggtagagatcttggtgggttttatttgag--gattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
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gtactctttcctctcccttctacgcaaatagcttcttcttttctttctttttttgtcctttaaccgactgataatgttgaatttgaa---gAGCAATTGCATTTTGCAGAAGTGGAAATGATGAAGGAGAGGTTTGCTAAGCTGCTTCTGGGAGAGGACATGTCTGGAGGCGGAAAAGGGGTGTGTACTGC------------------
upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G38430.1 (Arabidopsis thaliana), 3'ss of exon 1
ttgggaaccacaatggaggcgtagtatggtagagatcttggtgggttttat-----ttgaggattggtacgttttcatatacatttgtgctcataattt-ttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
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------------------gtataaaagtttccaaat-ttgacctcttttgtaaacattgatgaacactaggattcaatttcccttttgtttcctattgggtttcagAAATTGAGATGATGAAGGAGAGATTTGCTAAGCTACTTCTCGGGGAAGACATGTCTGGTGGAGGTAAAGGGGTTTGTACGGCGCTTGCTATCTCCAACGC
upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S28_109V6.1 (Physcomitrella patens), 3'ss of exon 2
ttgggaaccacaatggaggcgtagtatggtagagatcttggtggg---ttttatttgaggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
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-ggtctgctaccaagcgagcttcctaccgttgcacatttgaccagccattttatttcagttgcgagtgattgttatttctgatta--ctttttgcttctacagAAGTGGAGATGATGAAGGAGAAGTTTGCAAAGCTTCTGCTTGGGGAGGATATGTCTGGTGGGGGAAAAGGTGTTTGCACTGCGTTGGCTATATCGAACTC
upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S58_274V6.1 (Physcomitrella patens), 3'ss of exon 2
ttgggaaccacaat--ggaggcgtagtatggtagagatcttg-gtgggttttatttgaggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
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---tgcattactattcgagtgcattttatgatgcatatgtcgtgtacacggctagtgtgatgctgtaatatgtgttgcctgattgtgtcttctgttcttgcagAGGTGGAGATGATGAAGGAGAGGTTTGCAAAACTATTGCTTGGTGAAGATATGTCAGGTGGGGGCAAAGGGGTTTGCACAGCGTTGGCTATATCGAATGC
upper sequence: Vv03s0038g03620.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: PP1S34_404V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------------------------------ttgggaaccacaatggaggcgtagtatggtaga---gatcttggtgggttttatttga-ggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
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gtcggtaaacgttatcatcaaaacaaatttctccacaaattcaataagaaatttgactgaatttaagcgcatcgtatgatgcattggctttctccacgtttggactgatagatgcaagcgctgtgttaactgattgaacctgttgcttctacagAAGTGGAGATGATGAAGGAGAAATTTGCAAAGCTGTTGCTCGGGGAAGATATGTCAGGTGGGGGTAAAGGAGTTTGCACAGCATTAGCTATATCGAATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatttgaggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
tttttgt CT-rich tract
ttttcatatacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgggaaccacaatggaggcgtagtatggtagagatcttggtgggttttatttgaggattggtacgttttcatatacatttgtgctcataatttttgtagAAGCTGAGATGATGAAGGAGAGATTTGCTAAGCTTCTACTTGGGGAAGATATGTCTGGAGGAGGGAAAGGGGTTTGTACTGCCCTTGCCATCTCAAACGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - -aaccaca
- - - - - - - ggaggcg
- - - - - - - - - - - - - - - - - - - tggtggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -ggattgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gctcata