Sequence
atgc intronic sequence ATGC exonic sequencegtactgtttgggtacactataaggttttaaaaattgcaaatccaatccatgttactgcttcatattttcatctaatttggagttcttcttggatattcatctgcagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA13G26170.1 (Glycine max), 3'ss of exon 11
gtactgtttgggtacactataaggttttaaaaattgcaaatccaatccatgttactgcttcatattttca----tctaatttggagttct-tcttggatattcatc---tgcagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
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gtataacaaggatgatctggaagtatctatatat-gtaaattttcgttatttcaatttttagccactttactgttttcttttggtgctttgttttgaatgtttatccaatgcagCCCAACAAAGCCAAATCCAGGAGGTGGAGGGGAAACATGTGCAGAAACTGGGATCAACATTTTTTTTGGCAAG
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA15G36890.1 (Glycine max), 3'ss of exon 11
---------gtactgtttgggtacactataaggttttaaaaattgcaaatccaatccatgttactgcttcatattttcatctaatttggagttct-tcttggatattcatc---tgcagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
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gtataacaagaatgatctggtagtacttatatatgtaaattttcattatttaaattttta--accactttactgttgtttttcttttggtgctttgttttgaatgtttgttcaatgcagCCCCACAAAGCCAAATCCAGGAGGTGGAGGGGAAACATGTGCAGAAACTGGGATCAACATCTTTTTTGGCAAG
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: GLYMA04G36700.1 (Glycine max), 3'ss of exon 12
gtactgtttgggtacactataaggttttaaaaattgcaaatccaatccatgttactgcttcatattttca----tctaatttggagttct-tcttggatattcatctg----cagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
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gtataacaaggatgctctggaagtatctatatat-gtaaattttcattatttcaatttttagccactttactgttttgttttggtgctttgttttgaatgtttgtccaatgccagCCCAACAAAGCCCAATCCAGGAGGTGGAGGGGAAACATGTGCAGAAACTGGGATCAACATTTTTTTTGGCAAG
upper sequence: Vv04s0008g02780.t01 (Vitis vinifera), 3'ss of exon 11
lower sequence: AT3G12280.2 (Arabidopsis thaliana), 3'ss of exon 11
gtactgtttgggtacactataaggttttaaaaattgcaaatccaatccatgttactgcttcatattttcatctaatttggagttcttcttggatattcatctgcagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
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gtacattttgagta-actatgag----tagaaatggagagtt-agtttacctatctagtt-gtccctgtacttg-ttaagtaacctcttcggatttatgtctacagCCCAACACGGCCCAACCCAGGAGGTGGAGGAGAAACTTGTGCAGAAACTGGAATCAATATTTTCTTCACAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttactgcttcatattttcatctaatttggagttcttcttggatattcatctgcagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
atctaat putative branch site (score: 3)
ttcatct putative PPT
atattttcatctaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgtttgggtacactataaggttttaaaaattgcaaatccaatccatgttactgcttcatattttcatctaatttggagttcttcttggatattcatctgcagTCCAACACGGCCAAATCCAGGACGCGAAGGGGAAACATGTGCAGAAACTGGCATCAATATATTCTTTAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG