Sequence
atgc intronic sequence ATGC exonic sequence...ttatctcatatgggtccagaaagcgcctgggctatttaaaaacccagcttcatcatccatagtttctatctcttcttacattattgttttacatgtgcagTTTTGGAGGAATGGTTGCTTGCTTCTGCTATGCTTCAATTGATGTTCATTCCGTTTATCTTCCACCACCAAAACTTGAATTTAACTCTGATATTCAGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA13G17510.1 (Glycine max), 3'ss of exon 6
ttatctcatatgggtccagaaagcgcctgggctatttaaaaacccagcttcatcatccatagtttcta--tctcttcttacattattgttttacatgtgcagTTTTGGAGGAATGGTTGCTTGCTTCTGCTATGCTTCAATTGATGTTCATTCCGTTTATCTTCCACCACCAAAACTTGAATTTAACTCTGATATTCAGGAG
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--ttgtgaagcagttgaaatactcacatgtctgactgtcaaataaaaataacttatatacaacttttggttgtcttcttgaatagttgttttctgtgtgcagTTTTGGGAAGATGGTTGCCTGCTTTCGTTATGCTTCAATTCACCTTCATTCTGTTTATCTTCCCCCACCCAAACTGGAATTCAACTATGATAGTCAGGAC
upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA17G05000.1 (Glycine max), 3'ss of exon 9
ttatctcata-tgggtccagaaagcgcctgggctatttaaaaacccagcttcatcatccatagtttctatctcttcttacattattgttttacatgtgcagTTTTGGAGGAATGGTTGCTTGCTTCTGCTATGCTTCAATTGATGTTCATTCCGTTTATCTTCCACCACCAAAACTTGAATTTAACTCTGATATTCAGGAG
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ttgtgaagcacttgaaatactcacaagtcagactatcaaataaaaatgatttat-atacaacttttggttgtcttcttgaatagttgttttctgtgtgcagTTTTGGGAAGATGGTTGCCTGCTTTCGTTATGCTTCAATTCACCTTCATTCTGTTTATCTCCCCCCATCTAAACTTGAATTCAACTATGATAGTCAGGAC
upper sequence: Vv11s0016g00360.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT4G33240.1 (Arabidopsis thaliana), 3'ss of exon 7
---ttatctcatatgggtccaga--aagcgcctg-ggctatttaaaaacccagcttcatcatccatagtttctatctcttcttacattattgttttacatgtgcagTTTTGGAGGAATGGTTGCTTGCTTCTGCTATGCTTCAATTGATGTTCATTCCGTTTATCTTCCACCACCAAAACTTGAATTTAACTCTGATATTCAGGAG
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tatacggcaagtgtcagtctatgtttgacggttgtggccttgtattaaacaaccatgaccacgc-cagtaatgagtatcacttaaatttttctta-----atgcagTTTTGGGAGAATGGTTGCTTGCTTCCGCTATGCTTCAATCAATATTTACGCAGTGACTCTGCCACCAGCAAAGCTTTATTTTAACTATGAGAACCAGGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcttcatcatccatagtttctatctcttcttacattattgttttacatgtgcagTTTTGGAGGAATGGTTGCTTGCTTCTGCTATGCTTCAATTGATGTTCATTCCGTTTATCTTCCACCACCAAAACTTGAATTTAACTCTGATATTCAGGAG
ttcttac putative branch site (score: 2)
ttacattattgtttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttatctcatatgggtccagaaagcgcctgggctatttaaaaacccagcttcatcatccatagtttctatctcttcttacattattgttttacatgtgcagTTTTGGAGGAATGGTTGCTTGCTTCTGCTATGCTTCAATTGATGTTCATTCCGTTTATCTTCCACCACCAAAACTTGAATTTAACTCTGATATTCAGGAG
- - - - - - - -ccagaaa
- - - - - - - - - - - -cgcctgg
- - - - - - - - - - - - - - - - - - - -aaaccca
- - - - - - - - - - - - - - - - - - - - - - - - - - tcatcca