Sequence
atgc intronic sequence ATGC exonic sequence...gttttgaaaatttcattctgtggattctcattaaaaattttgtaattactattttctttttagcatgcattcttattttctctacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G41940.1 (Glycine max), 3'ss of exon 3
gttttgaaaatttcattctgtggattctcattaaaaat-tttgtaattactattttctttttagcatgcattcttattttc-tctacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
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-tcctttgtctttaggtaaacttgtgtacaatgaatctgtctgcaaccttcattatttatgaag-atgtactattattttcatgtatacttttgggtttcagAATGTAGTACAACTGAATCATCTGATGATATTGAGAAACAAGAGATGGAGGAAGTGTCAGATGAAGATGAAATCTCATATTATGATACTAGAGAGTGTTT
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G03420.2 (Glycine max), 3'ss of exon 5
gttttgaaaatttcattctgtggattctcattaaaaattttgtaatt-actattttctttttagca--tgcattcttattttc-tctacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
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----ggtaaatttgtctacaatgaatctgtctgcaaccttcattatttatgatcttgtcctttgtagatgtactattattttcatatatacttttggatatcagAATGTAGTACAACTGAATCATCTGATGATATTGAGAAACAAGAGATGGAGGAAGTGTCAGATGAAGATGAAATCTCATATTATGATACCAGAGAGTGTTT
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G04340.2 (Glycine max), 3'ss of exon 3
gttttgaaaatttcattctgtggattctcattaaaaattttgtaattactattttctttttagcatgcatt---cttattttctc-tacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
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---tgatgcattaaaatggaaaaaaaggcaacaaaattgtt-tgatgttatctctaatgatcatatgcaatgaacgtgttttcacatatatttgtggttttcagAATGCAGTACTACTGAATCATCTGATGATATTGAGAAACAGGAGATGGAGGAAGTGTCAGATGAAGATGAAATCTCATATTATGACACTAAAGAGTATTT
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G04340.1 (Glycine max), 3'ss of exon 4
gttttgaaaatttcattctgtggattctcattaaaaattttgtaattactattttctttttagcatgcattcttattttctc-tacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT-----------------------------------
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----------------------------------gtttgatgttatctctaatgatcatatgcaatgaa--cgtgttttcacatatatttgtggttttcagaatgcagtactactgaatcatctgatgatattgagAAACAGGAGATGGAGGAAGTGTCAGATGAAGATGAAATCTCATATTATGACACTAAAGAGTATTTTACAGAACATGGTTTTAGGTGTGGGTCAACAGGAG
upper sequence: Vv02s0154g00240.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA17G14820.1 (Glycine max), 3'ss of exon 3
gttttgaaaatttcattctgtggattctcattaaaaattttgtaattactattttctttttagcatgcattcttatt-ttctctacatttcattttggt----agAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
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--attgttgtctctaat--gatcatatgcaacgaacctttcacaacttttgatatatataagatct-catccttttaatttttcacatatacttttggttttcagAATGCAGTACTACTGAATCATCTGATGATATTGAGAAGCAGGAGATGGAGGAAGTGTCAGATGAAGATGAAATCTCATATTATGACACTAAAGAGTATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactattttctttttagcatgcattcttattttctctacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
tttcatttt CT-rich tract
attttcttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttttgaaaatttcattctgtggattctcattaaaaattttgtaattactattttctttttagcatgcattcttattttctctacatttcattttggtagAGTGCAGCACAACTGAATCATCTGATGATATTGAGAAACAAGAGCTTGAGGAAGTGTCAGATGAGGAGGAAACCTCTTTCTTTGACACTAGAGAGGATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - -gaaaatt
- - - - - - -cattctg
- - - - - - - - - - - - - - - -taaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgca