Sequence
atgc intronic sequence ATGC exonic sequencegtttgttttcatctgtaattttgtgtatatgtagggagctatattgatttgcttcacatggtttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os03g16900.1 (Oryza sativa), 3'ss of exon 7
gtttgttttcatctgtaattttgtgtatatgtagggagctatattgatttgcttcacatggt-ttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAG
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gtatgctcagttcaaataatctggat-tctccacacagcttca--gcttcattccagctgaaactctgcatattgtaatagGCCTTTGCTCGTTTGAGTGCTGTTTATGGTGGCACATACATGCTAAACAAAGCAGAATGCAAG
upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G30050.1 (Glycine max), 3'ss of exon 7
gtttgttttcatctgtaattttgtgtatatgtagggagctatattgatttgcttcacatggtttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAG
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gtttctctatatctgtttcccttt-taaacttagtaaacttcaggaactaactt----tggtttcttttatgtccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAGCCAGAATGCAAG
upper sequence: Vv03s0017g00490.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G07250.1 (Glycine max), 3'ss of exon 7
gtttgttttcatctgtaattttgtgtatatgtagggagctatattgatttgcttcacatggtttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAG
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-gttctctatatctatttcctttt-taaacttggaaaacttcaggaactaactt----tggtttcatttatttccttaagGCATTTGCACGTCTGAGTGCTGTGTATGGTGGAACTTACATGCTGAACAAACCAGAATGCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatatgtagggagctatattgatttgcttcacatggtttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAG
tattgat putative branch site (score: 3)
tatattgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgttttcatctgtaattttgtgtatatgtagggagctatattgatttgcttcacatggtttttgttgttactggcagGCATTTGCACGTTTAAGTGCTGTTTATGGTGGCACTTACATGCTCAACAAGCCTGAATGTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG