Sequence
atgc intronic sequence ATGC exonic sequence...tcagatagatcctgtttgaggtctgccgattcatactcattagcggttttgtaatttagttatattttctttgtcttaaaaaataaaaaaaatgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0019g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os05g38000.1 (Oryza sativa), 3'ss of exon 1
tcagatagatcctgtttgaggtctgccgattcatactcattagcggttttgtaatttagttatattttctttgtcttaaaaaataaaaaaaatgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
|| | | | |||| || | | | ||| | | | | | || | || | || || ||||||| |||||||||||||||||||| |||| ||| |||| || || |||||||| || || || || || || || || | ||||| || || ||
-------------gtacgtgcgccgccgccgcaaatccc----cagttcactcctcccttccaacacacgcggttaaattaattgaattggctg---cagAGATGGAGATGATGAAGGAGAGGTTCGCGAAGCTGCTGCTCGGCGAGGACATGTCCGGCGGCGGCAAGGGCGTCTGCACCGCGCTCGCCATCTCCAACGC
upper sequence: Vv13s0019g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os01g62990.1 (Oryza sativa), 3'ss of exon 1
tcagatagatcctgtttgaggtctgccgattcatactcattagcggttttgtaatttagttatatttt----ctttgtcttaaaaaataaaaaaaatga--aacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
|| | || |||| || | | || || | || || | || | | | | | | | | | ||| | ||||||| |||||||||||||||||||| |||| ||| |||| || || |||||||| ||| || || || || || || || | |||||| | || ||
-------------gtaccggcactaccgagcaatgcgcgc--gctcttcttctccttggtcaggttgtgcagcgtactgatgatacttgtgcatggtgatgagcagAGATGGAGATGATGAAGGAGAGGTTCGCGAAGCTGCTGCTCGGGGAGGACATGTCCGGGAGCGGCAAGGGCGTGTGCACGGCGCTCGCCATTGCCAACGC
upper sequence: Vv13s0019g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G05940.1 (Arabidopsis thaliana), 3'ss of exon 1
-tcagatagatcctgtttgaggtctgccgattcatactcattagcggttttgtaatttagttatattttctttgtcttaaaaaataaaaaaa--atgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
| || ||| | | | || |||||| | | || | | | |||||||||| | ||| | || | ||| | ||||||||||||||||| ||| | || |||| ||||||||||| |||||||| ||||| ||||| || ||||| ||||| || || || || ||
gttagtgagaaaaaatcaaaaattgaaacttttttactca------gccctaagatctcat-gtgttttctttgttgttgttgttaatctgattgtggattagATGTGGAGATGATGAAGGAGAGATTTGCAAAGTTGTTACTTGGTGAAGATATGTCAGGTTCTGGTAAAGGTGTGTGTACGGCTTTAGCTATCTCCAACGC
upper sequence: Vv13s0019g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G55660.1 (Arabidopsis thaliana), 3'ss of exon 1
tcagatagatcctgtttgaggtctgccgattcatactcattagcggttttgtaatttagttatattttctttgtcttaaaaaataaaaaaaatgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
| | ||| | | || || | | | | | | | | || || | | | | | |||||||||| || |||| ||||| | |||| |||||||||||||||||||||| || ||||| |||| |||||| | |||||||| ||||| |||||
-----------gtttgtgaaaatcgtgaacattagctaataatcaatctc----tctcgaagacgacttaaagttttgacattttgatttgtttttgtagAGATTGAGTTGTTGAAAGAGAGAATGGCGAAGTTGTTGCTTGGTGAAGACATGTCTGGTTCTGGTGAAGGAGTTTGTCCTGCTTTGGCTATTTCTAATGC
upper sequence: Vv13s0019g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S58_274V6.1 (Physcomitrella patens), 3'ss of exon 2
tcagatagatc-ctgtttgag---gtctgccgattcatac-tcattagcggttttgtaatttagttatattttctttgtcttaaaaaataaaaaaaatgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
| || || || ||| | | ||| |||| || | | | | | | || | | | | | | | | ||||| | ||||||||||||||||||||| | ||||| |||||||||||||| |||||||| || ||||||||||| ||||| ||||| || || |||||
-----tgcattactattcgagtgcattttatgatgcatatgtcgtgtacacggctagtgtgatgctgtaatatgtgttgcctgattgtgtcttctgttcttgcagAGGTGGAGATGATGAAGGAGAGGTTTGCAAAACTATTGCTTGGTGAAGATATGTCAGGTGGGGGCAAAGGGGTTTGCACAGCGTTGGCTATATCGAATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttttgtaatttagttatattttctttgtcttaaaaaataaaaaaaatgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
taatttagttatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcagatagatcctgtttgaggtctgccgattcatactcattagcggttttgtaatttagttatattttctttgtcttaaaaaataaaaaaaatgaaacagAGATTGAGATGATGAAGGAGAGGTTTTCGAAACTGTTGCTTGGTGAAGACATGTCAGGGTCTGGAAAAGGGGTTTGTACAGCTTTGGCCATTTCAAATGC
- - - - - cctgttt
- - - - - - - - - - -tctgccg
- - - - - - - - - - - - - - - -catactc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaaaat