Sequence
atgc intronic sequence ATGC exonic sequence...ttgtttcctcaccactccttggctttgcttttctacctcattcaaaatacgtttctttataaatctttatggactgtagattgagttgctttattttcagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0108g01560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G06040.1 (Glycine max), 3'ss of exon 10
ttgtttcctcaccactccttggctttgcttttctacctcattcaaaatacgtttctttataaatct------ttatggactgtagattgagttgctttattttcagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
| ||| | | |||||||| || || | | || |||| | | ||| ||||| | | | ||| | || |||||||| | ||||||||||| ||||| ||| | |||||||| || ||||||||||| || || || |||||||||||||||| ||| ||||| |||||||
---cagttatgctacttgtgaattcaa--tttctacccaatccatcagtattccctatatagttttgctaaactattcactgttggctttatcatttt-tgtttagGTGAAGAGAATCCATGAATATAAGCGACAATTATTGAACATATTTGGAATTGTTTACCGATACAAGAAGATGAAAGAAATGAGTGCTGCAGAAAGGAAAG
upper sequence: Vv14s0108g01560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G03490.1 (Glycine max), 3'ss of exon 10
ttgtttcctcaccactccttggctttgcttttctacctcattcaaaatacgtttctttataaatct------ttatggactgtagattgagttgctttattttcagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
| || | | | |||||||| || || | || |||| | | ||| ||||| | | || ||| | || |||||||| | ||||||||||| ||||| ||| | ||||||| || ||||||||||| || || || |||||||||||||||| ||| ||||| ||| |||
---caattttgttacgtgtgagttcaa--tttctacccaatccatttgtactccctatatagttttgctaaactattcactgttggctttattatttt-tgtttagGTGAAGAGAATCCATGAATATAAGCGACAATTAATGAACATATTTGGAATTGTTTACCGATACAAGAAGATGAAAGAAATGAGTGCGGCAGAAAGGGAAG
upper sequence: Vv14s0108g01560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: AT3G29320.1 (Arabidopsis thaliana), 3'ss of exon 10
------------------ttgtttcctcaccactccttggc--tttgcttttctacctcattcaaaatacgtttctttataaatctttatggact--gtagattgagttgcttta-------------ttttcagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
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gtcagttccaatggatcttggttacttttagattgatgagttgtttgcttgggtttttcggtttgagaagtcctttacgcaactctgagtagcttatgtagattcttttctttttgcattgaaaactttttgcagATCAAGCGTATACATGAGTACAAGCGACAACTGCTAAATATCTTGGGAATTGTTTACCGCTACAAAAAGATGAAGGAAATGAGTGCTAGTGAGAGAGAGA
upper sequence: Vv14s0108g01560.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: PP1S53_212V6.1 (Physcomitrella patens), 3'ss of exon 11
---------------------------------------ttgtttcctcaccactccttggc--tttgcttttctacctcattcaaaatacgtttctttataaatcttt----atggactgtagattgagttg---ctttatttt----cagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
| || ||| || | | | |||||| || | | | | || |||| | |||| |||| | | ||||||| ||||||||||||||||||||||||||||| |||||| | |||||| |||| | | || || || | || |||||| | ||||| | ||| || |
gtatctgtcggcagagtgaacttagatatcgtttcttaatgaggtcgtcatttgtcgctaatagtgtatctttctaaatcgcagtgctgaaatgtttataagaatcctctgagatggcttgtaactctcctcttacctttattggagagcagGTGAAGCGTATCCATGAATACAAGCGACAACTGCTCAACATCATGGGCGTCATCTACCGGTACCAGAATATGAAAAAGATGACCCCCAAGGAGCGGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatacgtttctttataaatctttatggactgtagattgagttgctttattttcagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
ctttattttc CT-rich tract
tttctttataaatctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtttcctcaccactccttggctttgcttttctacctcattcaaaatacgtttctttataaatctttatggactgtagattgagttgctttattttcagGTGAAGCGTATCCATGAATACAAGCGTCAACTGTTGAACATCTTGGGAATTGTTTATCGCTATAAAAAGATGAAAGAAATGACTGCAGCAGAGAGGAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - -ctcacca
- - - - - - - -tccttgg
- - - - - - - - - - - - - - - - ctacctc
- - - - - - - - - - - - - - - - - - - - - caaaata