Sequence
atgc intronic sequence ATGC exonic sequencegttcgtttttatattatagctctttgttattcacaaaagaattttattattattattattcggtgacttcaattttgtggtttaaaaaaaaaaggctgctactcttttgggaaaaagggaaagagaaattacttgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA12G07740.1 (Glycine max), 3'ss of exon 3
gttcgtttttatattatagctctttgttattcacaaaagaattttattattattattattcggtgacttcaattttgtggtttaaaaaaaaaaggctg-ctactcttttgggaaaa-agggaaagagaaattacttgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
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-------------------------------------------------------------------------------gataaacttaagttggttgtctgcacttttaccaatttacgtggatggttatcacc--attgaa------tctgacactgtaagttctgttg---atttgtcttaaaacagATACAACTTGCTGAGCATGAACATGAGCTAATTGAAATGAACTCTAACAGTGAGAAACTTCGGCAATCATATAATGAACTCCTGGAGTTCAAGATTGTAT
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G15730.1 (Glycine max), 3'ss of exon 3
gttcgtttttatattatagctctttgttattcacaaaagaattttattattattattattcggtgacttcaattttgtggtttaaaaaaaaaaggctgctactcttttgggaaaaagggaaagagaaattacttgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
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---------------------------------------------------------------------taagttggttgtctgca---------cttctgctgttttaccaatttatgtgggtggttatcactattg-------aatctgacattgtaagttctgttgc---tttctcttaaaacagATACAACTTGCTGAGCATGAACATGAGCTAATTGAAATGAACTCTAACAGTGAGAAACTTCAGCAATCATATAATGAACTCCTGGAGTTCAAGATTGTAT
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G04970.1 (Glycine max), 3'ss of exon 3
gttcgtttttatattatagctctttgttattcacaaaagaattttattattattattattcggtgacttcaattttgtggtttaaaaaaaaaaggctgctactcttttgggaaaaagggaaagagaaattacttgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
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gtctctttctatttttcatttttttctcag--atatgattattgtcttaggggtagcattca---agttacatgttgtcacgttatcaacaataacactcagcattttgccagcttgcttgaggattttcaccct---------taaatctgacaatatactttttgttggc-tttcttttatgccagATACAACTTGCTGAACATGAACATGAGCTGATTGAAATGAACTCTAACAGTGACAAACTTCAGCAATCATATAATGAACTCCAGGAATTCAAGATTGTAT
upper sequence: Vv06s0004g03450.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G40430.1 (Glycine max), 3'ss of exon 3
gttcgtttttatattatagctctttgttattcacaaaagaattttattattattattattcggtgacttcaattttgtggtttaaaaaaaaaaggctgctactcttttgggaaaaagggaaagagaaattacttgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
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gtctctttctatttttcatttttttttctcagatatgattattgtcttagggttagaattca---agttacatgctgtcaagttatcaacaataac-actcagcggttgccagtttgcttgaggattttaactcttaaatctgacaatat-------agttttttgttg---gctttctttttgccagATACAACTTGCTGAACATGAACATGAGCTGATTGAAATGAACTCTAATAGTGACAAACTTCGGCAATCCTATAATGAACTCCTAGAATTCAAAATTGTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
acttgat putative branch site (score: 5)
catttctcttatttt putative PPT
atttctcttatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcgtttttatattatagctctttgttattcacaaaagaattttattattattattattcggtgacttcaattttgtggtttaaaaaaaaaaggctgctactcttttgggaaaaagggaaagagaaattacttgatggaaggacaactttgctcagaatcttatgatgtgcatttctcttattttagATACAACTTTCTGAGCATGAACATGAGCTACTGGAAATGAACTCTAATAGTGAGAAACTACGGCAAACATATAATGAGCTCCTGGAGTTCAAGATGGTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG