Sequence
atgc intronic sequence ATGC exonic sequencegtaaaattttggctatttactcgtatgctgtgctccttggtcttctggggccatattgggatttttctgaagaagtttatttccatgttttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G049141_T02 (Zea mays), 3'ss of exon 2
---------------------------------------------------------------------------gtaaaattttg-gctatttactcgtatgctgtgctccttg----gtcttctggggccatattggg-atttttctgaagaagt-ttatttcc---------atgttttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
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gtaatcactctctgcctattatagacttttgcatcacaaaatactttgtttgtttcagctcatttatctcatagcttattcttatgcattacttgtcattatattgtgacagatgaactgtattatttattcttgttatttatttttattactaactgttgtttttgttgatggaatgttttcagAGAGTTGCATTATCTACAGCTGCTAATATGTGTAGGAAACTTCCTTCTGATGCATCAGATTTTGTAATGGAAGCGGTTCCACTTCTTACTAATCTACTGA
upper sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G00600.2 (Glycine max), 3'ss of exon 2
gtaaaattttggctatttactcgtatgctgtgctccttggtcttctggggccatattgggatttttctgaagaagtttatttccatgt-------tttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
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gtaactcatcaatgaaatcctaatatcaaagggtgatgattcattttg---catttgccacccttgattggcaagcctatattgacacaatcatgtttcagCGGGTGGCATTGTCTACTGCTGCAAATATGTGCAAGAAGCTTCCTCCTGATGCAGCTGACTTTGTGATGGAAGCTGTTCCACTTTTGACAAACCTCCTTC
upper sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G11490.2 (Glycine max), 3'ss of exon 2
------------------------------------gtaaaattttg-gctatttactcgtatgctgtgctccttggtcttctggggccatattgggatttttctgaagaagttta---tttccatgttttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
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gtaaattgtcagtgaagtacctaaatttagaggatgattatattatatggtccttttggatagtcataaatcatttggccacagatgcctttagtgagcaagtgtgtgtatgttgacattattctttgtttcagCGGGTTGCATTGTCTACTGCTGCAAATATGTGCAAGAAGCTTCCTTCAGATGCAGCTGATTTTGTGATGGAAGCTGTTCCTCTTCTGACAAACCTTCTTC
upper sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G00530.1 (Glycine max), 3'ss of exon 2
-----------gtaaaattttggctatttactcgtatgctgtgctccttggtcttctggggccatattgggatttttctgaagaagtttatttccatgt-tttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
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gtaactaatcaatgaaatcctaac-atcaaagggtg-acaattcattttgcgtttaccacccttgattagcaagcctatattga----cataatcatgtgtttcagCGGGTGGCATTGTCTACTGCTGCAAATATGTGCAAGAAGCTTCCTCCTGATGCAGCTGACTTTGTGATGGAAGCTGTTCCACTTTTGACAAACCTCCTTC
upper sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G03640.1 (Glycine max), 3'ss of exon 2
-------------------------------gtaaaattttggctatttactcgtatgctgtgctccttggtcttctggggccatattgggatttttctgaagaagtttatttccatgtt---------ttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
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gtaaattgtcagtgaagtacctacatttagaggatgattgcatcccactggtccttttggacagtcataaatcatttgg--ccacag-gtgccattagtgagcaagtgtatgttgacattattctttgtttcagCGGGTTGCATTGTCTACTGCTGCAAATATGTGCAAAAAGCTTCCTTCAGATGCAGCTGATTTTGTGATGGAAGCTGTTCCTCTTCTGACAAACCTTCTTC
upper sequence: Vv04s0023g03830.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT4G38600.1 (Arabidopsis thaliana), 3'ss of exon 2
gtaaaattttggctatttactcgtatgctgtgctccttggtcttctggggc-catattgggatttttctgaagaagtttatttccatgttttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
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------------------gtgggtaaatttctaacttctcttttatgctacacttactcgtgtatctaatgcacatgttacttggcttcttgtagCGCGTAGCACTATCTACTGCTGCCAACATGTGCAAGAAACTACCTTCTGATGCATCTGATTATGTTATGGAAGCTGTACCTTTGCTGACAAACCTACTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtcttctggggccatattgggatttttctgaagaagtttatttccatgttttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
tttccat CT-rich tract
aagtttattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaattttggctatttactcgtatgctgtgctccttggtcttctggggccatattgggatttttctgaagaagtttatttccatgttttcagAGAGTAGCATTGTCCACTGCTGCCAATATGTGTAAGAAACTCCCTCCAGATGCAGCCGACTTTGTGATGGAAGCTGTGCCTCTTTTGACAAACCTTCTTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG