Sequence
atgc intronic sequence ATGC exonic sequencegtgagttataaatccaggagtaggaatattttgattgttactattgttaactcttcagcaccactggcatatgatcttttctcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA09G01160.1 (Glycine max), 3'ss of exon 9
gtgagttataaatccaggagtaggaatattttgattgttactattgttaactcttcagcaccactggcatatgatcttttctcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
||||||| || | | | | | ||||| || |||||| ||| | | | ||| || |||| || ||| | |||| | | || |||||||||||||| || |||||||||||||| || ||||| || |||||||||||||||||||||||||| |||||||||
gtgagtttta--tttatatttccaactccaatgatt-ttgtcattgtttgtgcttgaacttga--agca----atttttttcttt---------cagTTGTTAGATGAAGTAACATTTGTGGACACTCCTGGTGTCCTATCTGGAGAGAAACAAAGGACTCAAAGAAGCTATGATTTCACTGGTGTTGTATCTTGGT
upper sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA15G11970.1 (Glycine max), 3'ss of exon 10
gtgagttataaatccaggagtaggaatattttgattgttactattgttaactcttcagcaccactggcatatgatcttttctcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
||||||| || | | | | | ||||| || ||| || |||| | | | ||| || ||||| | ||| | |||| | | || |||||||||||||| || |||||||||||||| || ||||| || |||||||||||||||||||||||||| |||||||||
gtgagtttta--tttatatttccaagtccaatgatt-ttgtcattatttgttcttgaacttga--agca----attctttcttt----------cagTTGTTAGATGAAGTAACATTTGTGGACACTCCTGGTGTCCTATCTGGAGAGAAACAAAGGACTCAAAGAAGCTATGATTTCACTGGTGTTGTATCTTGGT
upper sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G39450.1 (Glycine max), 3'ss of exon 11
gtgagttataaatccaggagtaggaatattttgattgttactattgttaactcttcagcaccactggcatatgatcttttc-tcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
||||||| | || | | ||||| | | | | || | | ||| ||| | | | ||| ||||| ||||| | || || |||||||||||||| || ||||||||||||||||||||||| || ||| |||| |||||||||||||| || || |||||||
gtgagttttctatatattttcaatttcattttttatccattgacaactggtttttgtcatttattaatccttgaacttgaagtaattttttctttcagCTGCTAGATGAAATAACATTTGTGGACACTCCTGGTGTCCTATCTGGAGAAAAGCAAAGGACTCAACGAAGTTATGATTTCACTGGCGTTATTTCTTGGT
upper sequence: Vv00s0516g00020.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G01310.1 (Glycine max), 3'ss of exon 11
gtgagttataaatccaggagtaggaatattttgattgttactattgttaactcttcagcaccactggcatatgatcttttctcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
||||||| | || || | | ||| ||| || | | | || || | | ||| | | || ||| ||||| ||||| | || || |||||||||||||| || ||||||||||||||||||||||| || ||| |||| ||||| |||||||| | || |||||||
gtgagttttctat------atatttacaatttcatttttggtggttcatttttgtcgaagttccttgaacttgaagcaatttttt-----ctttcagCTGCTAGATGAAATAACATTTGTGGACACTCCTGGTGTCCTATCTGGAGAAAAGCAAAGGACTCAACGAAGTTATGACTTCACTGGCGCTATTTCTTGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attgttaactcttcagcaccactggcatatgatcttttctcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
tgttaac putative branch site (score: 2)
tcttttctcttatg putative PPT
atatgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttataaatccaggagtaggaatattttgattgttactattgttaactcttcagcaccactggcatatgatcttttctcttatgaacttgcagCTTCTAGAACACATCACCTTTGTGGACACTCCAGGGGTCCTATCTGGAGAAAAGCAAAGAACACAAAGAAGCTATGATTTCACTGGTGTAATATCTTGGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC