Sequence
atgc intronic sequence ATGC exonic sequencegtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattgatgttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv18s0041g02020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G00980.1 (Glycine max), 3'ss of exon 2
gtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattgatg-ttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
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---------------------------------------------------------------gtacctacacactta-tttcaattctctcatttctgctaattataatttgcaccttcactccagtactatcactatacataataataat----acatgtcaagGTATCCACACACACCTGGCATATGGACAAAACAGCAAGTCCAAGCGTGGAAACCCATTGTGGATGCCGTTCATGCCAAAGGTGGTATCTTCTTTTGTCAG
upper sequence: Vv18s0041g02020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA15G35410.1 (Glycine max), 3'ss of exon 2
gtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattg-atgttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
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------------------------------------------------------tgataagatttaatcttctatatatattt-attctcttcctctcgcatgataaa------attcatctcatttgatggtactcccccttttggtgat-----gtgtttaaagCCATCCAAACGCAGTTGGTATATGGTCAAAAGAGCAAATTGAAGCATGGAAACCCATTGTGGATGCTGTTCATGCCAAAGGTGGTATATTCTTCTGTCAG
upper sequence: Vv18s0041g02020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA19G09320.1 (Glycine max), 3'ss of exon 2
gtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattgatgttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
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----------------------------------------------------------gtaatttgtttatg-acttacctttgcttgatg-aatgaaaaagaagacactgt--ttaatgtgattttgttaattacttttt-------attatctatatgtgcagGTTGGTGCACACACCCGGCATATGGAGAAAAGAGCAAGTTGAAGCATGGAAACCCATTGTGAATGCAGTTCATGCCAAAGGTGGTGTATTCTTTTGTCAG
upper sequence: Vv18s0041g02020.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA13G25570.1 (Glycine max), 3'ss of exon 2
gtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattgatgttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
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-------------------------------------------------------------tcacaataaaatttaatcgtttatatttattcattttcctctcgacatgataaaattcatctctttgatgatacttccccttttgatgatgtgtataa----agCCATCCAAACGCAGTTGGTATATGGTCAAGAGAGCAAATCGAAGCATGGAAACCCATTGTGGATGCTGTTCATGCCAAAGGTGGTATATTCTTCTGTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
ttttccatattttt CT-rich tract
ttttgtttttttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaattgtagaagaagtcattttctgaagttccattccttttctaaatgaaaataaacaaaatgtgctcgagcacatactttccagtgttttgatattgatgttggccctgtcgtttttgtttttttattttcttttttctttttggaattttccatatttttagGTATCCACATACACCAGGCATATGGACAAAAGAACAAGTTGAAGCATGGAAACCTATTGTAGATGCTGTACATGCTAAAGGCGGTATCTTTTTTTGTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG