Sequence
atgc intronic sequence ATGC exonic sequence...ttttggtgtaatttgaatacatcatgattttattattgtgttagaagaatatgtttattttatttacttatttaccttaattaatcctataaatgtgcagTTCCGACATTTTGCCAATAAGGTTGGAAATCTTGAGCGCCCATTTCTTAAAGAATTTTTTCCTCGCTGGGTAGGATCTTGTGGGTGTCCTGTACTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g04200.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA17G13080.1 (Glycine max), 3'ss of exon 11
ttttggtgtaat-ttgaatacatcat-gattttattattgtgttagaagaatatgtttattttatttacttatttaccttaattaatcctataaatgtgcagTTCCGACATTTTGCCAATAAGGTTGGAAATCTTGAGCGCCCATTTCTTAAAGAATTTTTTCCTCGCTGGGTAGGATCTTGTGGGTGTCCTGTACTAAG
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--gtagtttaatcttcaatgttgtattaactgaagcatcttattcttgacgggttttgcttgtcaatataatgtggatctgatcatttttttcaatatgcagTTTCGACATTTTGCTAACAAGGTTGGGAATCTTGAACGCCCATTTCTTAAAGATTTCTTTCCTCGGTGGGTTGGTTCTTGTGGATGTCCTGTTTTAAG
upper sequence: Vv17s0000g04200.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA05G07920.1 (Glycine max), 3'ss of exon 11
----ttttggtgtaat-ttgaatacatcatgattttattattgtgttagaagaatatgtttattttatttacttatttaccttaattaatcctataaatgtgcagTTCCGACATTTTGCCAATAAGGTTGGAAATCTTGAGCGCCCATTTCTTAAAGAATTTTTTCCTCGCTGGGTAGGATCTTGTGGGTGTCCTGTACTAAG
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taatcttcaatgctgtattagctgaagcatctaattcttgacaggttttggttctgtcaatatactgtggatttgataa-----aaaaaaaatttcaatatgcagTTTCGACATTTTGCTAACAAGGTTGGGAATCTTGAACGCCCATTTCTTAAAGACTTCTTTCCTCGGTGGGTCAGTTCTTGTGGATGTCCTGTTTTAAG
upper sequence: Vv17s0000g04200.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT1G73960.1 (Arabidopsis thaliana), 3'ss of exon 11
ttttggtgtaatttgaatacatcatgattttattattgtgttagaagaatatgt----ttattttatttacttatttaccttaattaatcctataaatgtgcagTTCCGACATTTTGCCAATAAGGTTGGAAATCTTGAGCGCCCATTTCTTAAAGAATTTTTTCCTCGCTGGGTAGGATCTTGTGGGTGTCCTGTACTAAG
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---ttgtata-tttctcttcgtgatcaaccgattatctttcagcttgaattttcgaagtcagttctaatatctgtgtttctcaaatttcacttttgagatgcagTTCCGGCAATTTGCTAATAAGATTGGAAATCTTGAGCGTCCATTTCTTAAAGAATTTTTTCAGCGATGGGTTGCATCTTATGGTTGTCCCGTGCTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaatatgtttattttatttacttatttaccttaattaatcctataaatgtgcagTTCCGACATTTTGCCAATAAGGTTGGAAATCTTGAGCGCCCATTTCTTAAAGAATTTTTTCCTCGCTGGGTAGGATCTTGTGGGTGTCCTGTACTAAG
aattaat putative branch site (score: 3)
tttattttatttactt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttggtgtaatttgaatacatcatgattttattattgtgttagaagaatatgtttattttatttacttatttaccttaattaatcctataaatgtgcagTTCCGACATTTTGCCAATAAGGTTGGAAATCTTGAGCGCCCATTTCTTAAAGAATTTTTTCCTCGCTGGGTAGGATCTTGTGGGTGTCCTGTACTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- -tggtgta
- - - - - - - - - -catcatg
- - - - - - - - - - - - - - - - - - - - - agaagaa