Sequence
atgc intronic sequence ATGC exonic sequencegtttggttttcaacctggtgtggcttctgtatttcctttttgttttttccttgtgcattgccctttctaacaatttttcctgtgaattatcactgaaacctgtttgctcaaccttattttattttatttgcttctatttgcttgatcaacttgctgtaaaagtagtctgagttcacacaccatgcatgcattgttccagGAACTTGAGAAGAGTGACTGTGCAGCCCTCCGCAACAATATTGTAGTTACATTGGCAGATTTTTGTGTCCGGTACACTGCTTTAGTTGATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA15G15920.1 (Glycine max), 3'ss of exon 3
gtttggttttcaacctggtgtggcttctgtatttcctttttgttttttccttgtgcattgccctttctaacaatttttcctgtgaattatcactgaaacctgtttgctcaacc--ttattttattttatttgcttctatttgcttgatcaacttgctgtaaaagtagtctgagttcacacaccatgcatgcattgttccagGAACTTGAGAAGAGTGACTGTGCAGCCCTCCGCAACAATATTGTAGTTACATTGGCAGATTTTTGTGTCCGGTACACTGCTTTAGTTGATTG
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--------------------------------------------------------------------------------------------gttgggcctgtagctttgactgtttatgttatgcctgtggactgtgatatttttctcacttcctaattaaaatatattctgttt-caaaatatgca------------gGAGCTTGAAAAGAGTGGATCTGCAGCTCTTCGCAACAATATTGTGGTCATAATGGCAGACTTTTGTGTCCGGTTCACTGCTCTTGTTGATTG
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G15890.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttggttttcaacctggtgtggcttctgtatttcctttttgttttttccttgtgcattgccctttctaacaatttttcctgtgaattatcactgaaacctgtttgctc---aaccttattttattttatt-tgcttctatttgcttgatcaacttgctgtaaaagtagtctgagttcacacaccatgcatgcattgttccagGAACTTGAGAAGAGTGACTGTGCAGCCCTCCGCAACAATATTGTAGTTACATTGGCAGATTTTTGTGTCCGGTACACTGCTTTAGTTGATTG
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------------------------gtctgtctgcatttgctgattcatgtgtccattttatcatttt----gattatttctggaaa--------ggaaacttttcgttccaggaacttgattcattggatggtagtctcctttgtctcttcaattttttttaac--ctatgtgaacccgt---tgatgcct-tactcttgcagGAACTTGAAAAGAGTGATTGTGCAGCCTTGCGTAACAATCTTGTAGTAGCGATGACAGACTTTTGTGTTCACTATACAGCCATGATTGAGTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcaacttgctgtaaaagtagtctgagttcacacaccatgcatgcattgttccagGAACTTGAGAAGAGTGACTGTGCAGCCCTCCGCAACAATATTGTAGTTACATTGGCAGATTTTTGTGTCCGGTACACTGCTTTAGTTGATTG
gcttgat putative branch site (score: 5)
ttgttcc putative PPT
taaaagta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttggttttcaacctggtgtggcttctgtatttcctttttgttttttccttgtgcattgccctttctaacaatttttcctgtgaattatcactgaaacctgtttgctcaaccttattttattttatttgcttctatttgcttgatcaacttgctgtaaaagtagtctgagttcacacaccatgcatgcattgttccagGAACTTGAGAAGAGTGACTGTGCAGCCCTCCGCAACAATATTGTAGTTACATTGGCAGATTTTTGTGTCCGGTACACTGCTTTAGTTGATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT