Sequence
atgc intronic sequence ATGC exonic sequencegtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttttttactagagaatggggaataatgtctatgctaagaaaaattctgttgttggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: LOC_Os02g58590.1 (Oryza sativa), 3'ss of exon 10
gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttttttactagagaatggggaataatgtctatgctaagaaaaattctgttgttggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
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------gtgt-tacaccttggatgctcttataactattttgttctttgatctgtcttc----------------tttccatcccatttatggtta-ataatttgctaatagATGATATGGAGATCGCCCCTGATTTTTTTGACTACTTCGAGGCTGCAGCTAAATTACTTGATAACGATAA
upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G00230.1 (Glycine max), 3'ss of exon 10
gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttttttactagagaatggggaataatgtctatgctaagaaaaattctgttgttggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
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---aaattattaagggaccaaattaataattaagctttcttt--ttaatctttttatca-----ttggtaaaaacatggaagctaatactacaatt-ttatccaatctcagATGACATGGAAATAGCACCTGATTTCTTTGATTATTTTGAAGCTGCAGCGACTCTCCTTGACAAGGATAA
upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G00200.1 (Glycine max), 3'ss of exon 10
gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttttttactagagaatggggaataatgtctatgctaagaaaaattctgttgttggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
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-taaaataattaagggaccaaattaataattaagcttttt----ttaatctttttatca-----ttggtaaaaacatggaagctaatacaataact-ttatccaatctcagATGACATGGAAATAGCACCTGATTTCTTTGATTATTTTGAAGCTGCAGCGAGTCTCCTTGAGAAGGATAA
upper sequence: Vv00s0972g00010.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G38240.3 (Arabidopsis thaliana), 3'ss of exon 10
gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttt-------tttactagagaatggggaataatgtctatgctaagaaaaattctgttgt-tggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
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gtggcgctttttaacctttcacactcatcgtaccttgctgttgtattgtttaagaggggctgtctttaccttgtggagtattgctta-----agagaggttatcttgtctctttaacagATGATATGGAAATTGCTCCAGACTTCTTTGATTACTTTGAGGCTGCAGCTAGTCTCATGGATAGGGATAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctagagaatggggaataatgtctatgctaagaaaaattctgttgttggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
taagaaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgccaatatctgtgctttaaaatatctttcaccttttttctcctttatttttttactagagaatggggaataatgtctatgctaagaaaaattctgttgttggaaagcagATGATATGGAAATTGCCCCTGATTTCTTTGACTACTTTGAGGCTGCCGCAGCTCTCCTGGACAATGATAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC