Sequence
atgc intronic sequence ATGC exonic sequencegtattttctgacttcttattttgttatttatgtttctgacatattctatctagattttcatgcttctttcacttggctatttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA06G07480.1 (Glycine max), 3'ss of exon 8
---------gtattttctgacttcttattttgttatttatgtttctgacat-attctatctagattt--tcatgcttctttcacttggctat----ttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG
| | ||| || | | || | | || | | | | |||| | | ||| | || ||| || | ||| | |||||||| |||| ||| | ||||| |||||||||| ||||||||||| ||||| ||||||||||| || |||||| | |||||||| | || || |
gtatgttattttgtctctaacacccttcttcctaaaacttggcttttatgttattcggtgttgataaagttatatatctggcatatctttatggttcttagACTCTGATTTGCGGGATCCTTGGCCTTCCTCCTTCCAATGGAGTCCTTCCACAGTCCCCCATGCATACAAAGAGTTTAGCAGTCCTTAGGAGGCGG
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA04G07390.1 (Glycine max), 3'ss of exon 7
-----gtatttt----ctgacttcttattttgttatttatgtttctgacatattctatctagattttcatgctt--ctttcacttggctatttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG
||||||| || | || | || | | || | | ||||| | | ||| ||| | | | || | ||||| || |||| ||| | ||||| |||||||||||||||||||||| ||||| ||||||||||| || |||||| | ||||| || | || || |
gtatggtattttgtctctagcatccttcttcctaaaacttggctttatgttattccttgttgataaaattgcctgacatatctttatggtccttagACTTTGATTTGCGGGATCCTTGGCCTTCCTCCTTCAAATGGAGTCCTTCCACAGTCCCCCATGCATACAAAGAGTTTAGCAGTTCTTAGGAGGCGG
upper sequence: Vv04s0008g04980.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G32510.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatt-ttctgacttcttattttgttatttatgtttctgacatattctatcta---gattttcatgcttctt--tcacttggctatttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG
|||| || ||| || | | | | || | | | | || | || | || || || | || || |||| || | ||||| | |||||| |||||||||| ||||| ||| | ||||||||||| |||||||| |||||||||||||| || ||||||| |
gtatggttatgatgatggcttgcgacttctgtattctttagctgctgcatttgtatgaatcaaatactaattcatttctaaatggttgtagACACTAATCTGTGGCCTACTTGGACTTCCTCCTTCGAATGGGGTCATTCCACAATCCCCTATGCACACAAAGAGTCTTGCAGTTCTTAAGAAGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtttctgacatattctatctagattttcatgcttctttcacttggctatttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG
ttctgac putative branch site (score: 2)
ctatttc putative PPT
atattctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtattttctgacttcttattttgttatttatgtttctgacatattctatctagattttcatgcttctttcacttggctatttcagACTCTGCTTTGTGGGTTGCTTGGATTTCCTCCTTCAAATGGAGTCCTCCCACAATCCCCCATGCACACTAAGAGTCTTGCAGTCCTCAAGAAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG