Sequence
atgc intronic sequence ATGC exonic sequencegtattctacttctccttgcaatttcatatggtttttgtttactcttcatcgaagtttttggaggacaccagttgcttaatctatatttatttggttttaacagATGTTTTGGCCGAAGTTGCTTGTTCACAAAACAAAGCAGCGTCTCACTAAAATGACTCAGATGCGAATTCGCATGAGGAAGCTTGCATTGAAAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os07g16950.3 (Oryza sativa), 3'ss of exon 4
gtattctacttctccttgcaatttcatatggtttttgtttactcttcatcgaagtttttggaggacaccagttgcttaatctatatttatttggttttaacagATGTTTTGGCCGAAGTTGCTTGTTCACAAAACAAAGCAGCGTCTCACTAAAATGACTCAGATGCGAATTCGCATGAGGAAGCTTGCATTGAAAACAAG
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-------------gtatgcacttcgagct--ttgtcattcgatctggatgtgaacttttatttta----agtctcatagcttgtctttctttcattatg-tagGAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATCGGATAAGAATGAGGAAGCTTCAACTGAAAGTGAG
upper sequence: Vv17s0000g09220.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G23280.1 (Arabidopsis thaliana), 3'ss of exon 3
--------gtattctact-tctccttgcaatttcatatggtttttgtttact--cttcatcgaagtttttggaggacaccagttgcttaatctatatttatttggttttaacagATGTTTTGGCCGAAGTTGCTTGTTCACAAAACAAAGCAGCGTCTCACTAAAATGACTCAGATGCGAATTCGCATGAGGAAGCTTGCATTGAAAACAAG
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gtgagcttgagatttattgccacagtttatttctttactcttcttcttcattagcaatgtcaatgtcttatgatctgggagggttttaattattttctttcttacgtgtggcagTTGTACTGGCCCAAGTTGTTGCAGCATAAGGTTAAACAAAGACTGACTAAAATGACTCAGATGCGTATTCGTATGAGGAAACTTGCTCTGAAAACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcgaagtttttggaggacaccagttgcttaatctatatttatttggttttaacagATGTTTTGGCCGAAGTTGCTTGTTCACAAAACAAAGCAGCGTCTCACTAAAATGACTCAGATGCGAATTCGCATGAGGAAGCTTGCATTGAAAACAAG
gcttaat putative branch site (score: 4)
ttaatctatatttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattctacttctccttgcaatttcatatggtttttgtttactcttcatcgaagtttttggaggacaccagttgcttaatctatatttatttggttttaacagATGTTTTGGCCGAAGTTGCTTGTTCACAAAACAAAGCAGCGTCTCACTAAAATGACTCAGATGCGAATTCGCATGAGGAAGCTTGCATTGAAAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG