Sequence
atgc intronic sequence ATGC exonic sequence...tgtttcgtttcttttgtcactcttcagtttgctaactttcaaaattgttaactgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g01480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA03G36910.1 (Glycine max), 3'ss of exon 5
tgtttcgtttcttttgtcactcttcagtt-tgctaactttcaaaattgttaactgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT
||| | || || | || || |||| | | ||||||| | ||| | || | || | || | || ||| ||| |||| |||||| | |||||||||||||| ||||||||||| |||||||| ||||||| || ||||||||||| ||||||||||| ||||||||||||||||
agttcctttggaatttgaatggttaagagatgctta-tagaaaaattgaggttttctaccggtaacaaggtttagtaaaggatttttttttccttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
upper sequence: Vv07s0104g01480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA19G39560.2 (Glycine max), 3'ss of exon 5
------------------------------------------------------------------------------------------------tgtttcgt-ttcttttgtcactc--ttcagtttgctaactttcaaaattgttaa-ctgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT
| | ||| |||| | | | | | | | | | ||| | | | | ||| | ||||| || | | | |||| ||| |||| |||||| | |||||||||||||| ||||||||||| |||||||| ||||||| || ||||||||||| ||||||||||| ||||||||||||||||
gtatatttttggaggcatgtcagctgagagtacctacaaggatattatttccaaaaattattctattttaaggaacaaaaaatggtgtttataaattatccaaaattcctttggaatttgaatgattgagatggttatggaaagtttaaggttttctactagtaacaagttgtactaaaggatatttttcccttctttagGTGTACATGTCGTATGTGCAGGCTTTGTATGGTGGAGGAGGTTGGCCCCTGAGTGTGTTTCTTTCACCTGACTTGAAACCTTTAATGGGTGGAACTTACT
upper sequence: Vv07s0104g01480.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G03200.1 (Arabidopsis thaliana), 3'ss of exon 5
--tgtttcgtttcttttgtcactcttcagtttgctaactttcaaaattgttaactgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT
|| || ||||| || | | | || | | || | | ||| | |||| | | || || | | |||| || ||| | | || |||||| | ||||||||||| || |||||| || || ||||||||||||||||| || || |||||||||||||| ||||
agacttgtgtagaatttgtt-ctagctggatcagtgtctactagagaaagtagcc-ttgactatattcatggacttacgattctttttactggcacttttagGTTTATATGTCGTTCGTCCAGGCTCTGTATGGTGGAGGAGGGTGGCCACTGTCGGTATTCCTTTCACCTGATTTAAAGCCGTTGATGGGTGGAACCTACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttaactgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT
tgctaac putative branch site (score: 1)
ttgtttcatctctcc putative PPT
aaaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgtttcgtttcttttgtcactcttcagtttgctaactttcaaaattgttaactgctaactgttttcaagtaaggctgagaaaattgtttcatctctccagGTATACATGACATATGTGCAGGCTTTATATGGTGGAGGGGGTTGGCCATTGAGTGTCTTCCTTTCACCTGATTTGAAACCTTTGATGGGTGGAACTTACT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - -ctcttca
- - - - - - - - - - - - - - -tgctaac
- - - - - - - - - - - - - - - - - - - tcaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - -ctgctaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -agaaaat