Sequence
atgc intronic sequence ATGC exonic sequence...gaggatttcatctgaatttagaagggaaaaattattttgggccacacttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: LOC_Os07g23990.1 (Oryza sativa), 3'ss of exon 18
---gaggatttcatc--tgaatttagaagggaaaaattattttgggccacacttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
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agtacaggtttcactgttgactacttcacttaatgctttcatcatttaatgatattgcttgattatctgtttcaactaacatacttgtctgtta-----ttttagACTGCTGCGAGCTACCATGCCATAGCCATTGCTCTCTCATTGATGGAAGCTTATTCCTTGAGTGTTCAGCATGAGCAAACAACCTTGCAAATTCTTCGTG
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA07G06160.1 (Glycine max), 3'ss of exon 20
gaggatttcatctgaatttagaag---ggaaaaattattttgggccaca-cttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
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actaaaataataggaacctaagggattgtattgtttgtttaatgaaacttctcatctgtgttataacacttacatcttcttggatgtttttc----ctctgcagACAGCTGCAAGTTATCATGCAATAGCAATAGCACTTTCATTGATGGAAGCATATCCATTGAGTGTCCAGCATGAGCAAACAACTTTGCAAATTCTGCGGG
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: GLYMA16G02770.1 (Glycine max), 3'ss of exon 20
gaggatttcatctgaatttagaagggaaaaat-tattttgggccacactt---gtgtatatcattcctttggagctaatttccatctcttt---taatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
| || ||| || | | | ||| || | |||| | | | | || | | | | | || ||||| || | || |||| |||||||| |||||||| |||||||||||||| || || ||||||||||||||||| || ||||| || ||||||||||||||||| ||||||||||| || |
-----aataataggaacctatgggattgatttatatgtttaatgaaacttctcatctttgttataacacttaaac--acttgcatcttcttggatcatcctctgcagACAGCTGCAAGTTATCATGCAATAGCAATAGCACTCTCATTGATGGAAGCATATCCATTGAGTGTCCAGCATGAGCAAACAACTTTGCAAATTCTGCGGG
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: AT1G01320.2 (Arabidopsis thaliana), 3'ss of exon 20
gaggatttcatctgaatttagaagggaaaaattattttgggccacacttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
| | || | || ||| || ||| | | || | | | || | |||| || | | ||||| || ||||| |||||||| ||||||||||| || || |||||||| ||||||| ||| || ||||||||||||||||||||||| ||| || ||||
---------gttcttttcccgatgctcgttttttgttttgggaacataaatatgtaagaaactt---gatttgatttt-gctaattatgtcaaatttcagACTGCTGCAAGCTACCATGCCATAGCAATTGCGCTCTCCTTGATGGAGGCATACCATTTAAGTGTTCAGCATGAGCAAACAACCTTAAGAATCCTTCGAG
upper sequence: Vv15s0046g00740.t01 (Vitis vinifera), 3'ss of exon 20
lower sequence: PP1S73_28V6.1 (Physcomitrella patens), 3'ss of exon 14
gaggatttcatctgaatttagaagggaaaaattattttgggccacacttgtgt--------ata-tcattcctttggagctaatttccatctcttttaatgctctc-cagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
||| | || | || || ||| | | | | || | | | | | | | || ||||| | | || | || | ||||| || ||||||||||| ||||| |||||||| || ||| | ||||| || ||| | | || ||||||||||||||||| ||||| || ||| | | |
-----gttcgttgtaacactagttgttgaatttttttcgagtacaagtcgtttcatctttaacacttaccctatcactgcaaatttactaattgagtacttctgttgcagACTGCTGCAAGTTACCACGCAATTGCAATTGCGCTTTCACTTATGGAGGCTTACTCCCTCAGTGTTCAGCATGAGCAAACTACCTTACAGATTTTGCAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
ttttaat putative branch site (score: 3)
tgctctcc CT-rich tract
tatatcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaggatttcatctgaatttagaagggaaaaattattttgggccacacttgtgtatatcattcctttggagctaatttccatctcttttaatgctctccagACAGCAGCAAGTTACCATGCAATAGCAATTGCTCTATCATTGATGGAAGCATACCCTTTGAGCGTTCAGCATGAGCAAACAACCTTGCAAATTCTCCGAG
- - - - - - - - - - - - ggaaaaa
- - - - - - - - - - - - - - - - - ttttggg
- - - - - - - - - - - - - - - - - - - - -ccacact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tcattcc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tggagct