Sequence
atgc intronic sequence ATGC exonic sequence...tttatgtagtttctttgcaaatttcacatcattatatatgctattattgattttgttgggattccctttgtctcattatcttggggtttccatgcctcagGGTCGTAATCAACTATGATTTCCCAACTGGAATTGAAGATTACGTCCACCGAATCGGACGAACCGGGAGGGCTGGTGCAACAGGAGTATCATACACATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA09G03560.1 (Glycine max), 3'ss of exon 8
---------------------------------------------------------------------------------------------tttatgtagtttctttgcaaatttcacatcattatatatgct---attattgattttgttgggattccctttgtctcattatcttggggtttccatgcctcagGGTCGTAATCAACTATGATTTCCCAACTGGAATTGAAGATTACGTCCACCGAATCGGACGAACCGGGAGGGCTGGTGCAACAGGAGTATCATACACATTT
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gttagcctgtttgtgtctggagtgcttatactcaagcatataaatgaataggtcatattatgaaatcttttgtatgacttttgcatgtgctagataatgatgttccttt-tatttagcagattatggccttagctttgtttaggagttgtgtgatgatgcgttgtagttgaattttatgaattttccatgatacagGGTGGTGATCAATTATGATTTCCCCACTGGAATTGAGGACTATGTGCACCGTATAGGAAGAACTGGAAGGGCGGGTGCTACTGGAGTGTCATATACCTTT
upper sequence: Vv05s0020g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G14470.1 (Glycine max), 3'ss of exon 5
---------------------------------------------------------------------------------------------tttatgtagtttctttgcaaatttcacatcattatatatgctattattga---ttttgttgggattccctttgtctcattatcttggggtttccatgcctcagGGTCGTAATCAACTATGATTTCCCAACTGGAATTGAAGATTACGTCCACCGAATCGGACGAACCGGGAGGGCTGGTGCAACAGGAGTATCATACACATTT
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gttagcctgtttgtgtttggagtgcttatactcaagcatataagtgaataggtcatattatgaaatcttttatatgacttttgcatgtgctagataatgatgttccttt-tatttagtacgttgtgaccttagctttgtttgggagttgtgtgatgatgcattgtagttgaattttgtgaattttccatgatacagGGTGGTAATAAATTATGATTTCCCCACTGGAATTGAGGACTATGTGCACCGTATAGGAAGAACTGGAAGGGCAGGTGCTACTGGAGTGTCATATACCTTT
upper sequence: Vv05s0020g00470.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G06480.1 (Arabidopsis thaliana), 3'ss of exon 7
tttatgtagtttctttgcaaatttcacatcattatatatgctattattgatt--ttgttgggattccctttgtctcattatcttggggtttccatgcctcagGGTCGTAATCAACTATGATTTCCCAACTGGAATTGAAGATTACGTCCACCGAATCGGACGAACCGGGAGGGCTGGTGCAACAGGAGTATCATACACATTT
|||| || | | ||| ||||||| || | || || | |||| | || || || | | | | || | | |||| || || |||||||| ||||| ||||||||| ||||||| || |||||||| || || ||||||| | ||||||||||| ||||| ||| ||| ||
--------gtttgttgtaataattc---ctggtatatatctctttgcttgtttgttatcaagattac--ttacct--ttgt-tcgtgtttatactacttcagAGTTGTGATCAACTACGATTTTCCAACTGGAGTTGAAGACTATGTCCACCGTATTGGGAGAACCGGTCGAGCTGGTGCAACTGGAGTTGCATTCACTTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgattttgttgggattccctttgtctcattatcttggggtttccatgcctcagGGTCGTAATCAACTATGATTTCCCAACTGGAATTGAAGATTACGTCCACCGAATCGGACGAACCGGGAGGGCTGGTGCAACAGGAGTATCATACACATTT
tattgat putative branch site (score: 3)
tttccat putative PPT
attatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tttatgtagtttctttgcaaatttcacatcattatatatgctattattgattttgttgggattccctttgtctcattatcttggggtttccatgcctcagGGTCGTAATCAACTATGATTTCCCAACTGGAATTGAAGATTACGTCCACCGAATCGGACGAACCGGGAGGGCTGGTGCAACAGGAGTATCATACACATTT
- - - - - - ctttgca
- - - - - - - - - - - - cacatca
- - - - - - - - - - - - - - - - - - - - - - - - - - -tgttggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggggttt