Sequence
atgc intronic sequence ATGC exonic sequence...atagatatacatttgttttttcaactagaaaaagggtctgcgtgattatttattttgaaattaatgcttcaattgctattttcttttgttttattgccagGTTAAAGTTGTAGACAGAACTGCTGTTGTTACAGAAAATGCAGAAACTGTGGTTGTGAAGCCCCCTGGCCTTCGAGAAGCCATCAATGCTGAAATTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA07G10810.2 (Glycine max), 3'ss of exon 6
atagatatacatttgttttttcaactagaaaaagggtctgcgtgattatttatt--ttgaaattaatgcttcaattgcta-ttttcttttgttttattgccagGTTAAAGTTGTAGACAGAACTGCTGTTGTTACAGAAAATGCAGAAACTGTGGTTGTGAAGCCCCCTGGCCTTCGAGAAGCCATCAATGCTGAAATTG
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---tatatgtgattatcattctagtgtcaatttatttgtttttactaattaattcatggaaattcagaaattaatgcttggtttggcttttctcaactgtcagGTCAAAGTTGCTGACAGAACGGCTGTTGTTACAACAAATGCAGAAACTGTGGTTGTGAGCCCTCCGGGTCTACAAGAAGCCATAAATGAAGAAACTG
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA01G40950.1 (Glycine max), 3'ss of exon 8
atagatatacat-ttgttttttcaactagaaaaagggtctgcg-tgattatttattttgaaattaatgcttcaattgctattttcttttgttttattgccagGTTAAAGTTGTAGACAGAACTGCTGTTGTTACAGAAAATGCAGAAACTGTGGTTGTGAAGCCCCCTGGCCTTCGAGAAGCCATCAATGCTGAAATTG
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--aaatttagaaattaatgcttggtttggctttcttgtttttactaattaattcatggaaatttagaaattaatgcttggtttggcttttctcaactgtcagGTCAAAGTTGCTGACAGAACAGCTGTTGTTACGACAAATGCAGAAACTGTGGTTGTGAGCCCCCCGGGTCTACAAGAAGCCATAAATGAAGAAACTG
upper sequence: Vv13s0106g00380.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA20G22760.1 (Glycine max), 3'ss of exon 6
atagatatacatttgttttttcaactagaaaaagggtctgcgtgattatttatt--ttgaaattaatgcttcaattgcta-ttttcttttgttttattgccagGTTAAAGTTGTAGACAGAACTGCTGTTGTTACAGAAAATGCAGAAACTGTGGTTGTGAAGCCCCCTGGCCTTCGAGAAGCCATCAATGCTGAAATTG
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---tatatgtgattatcattccagtgtcaatttatttgtttttactgattaattcatggaaattcagaaattaatgcttggtttggcttttctcaactgtcagGTCAAAGTTGCTGACAGAACGGCTATTGTTACAACAAATGCAGAAACTGTGGTTGTGAGCCCCCCGGGTCTAAAAGAAGCCATAAATGAAGAAACTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatttattttgaaattaatgcttcaattgctattttcttttgttttattgccagGTTAAAGTTGTAGACAGAACTGCTGTTGTTACAGAAAATGCAGAAACTGTGGTTGTGAAGCCCCCTGGCCTTCGAGAAGCCATCAATGCTGAAATTG
aattaat putative branch site (score: 3)
ctattttcttttgttt putative PPT
tattttcttttgtttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atagatatacatttgttttttcaactagaaaaagggtctgcgtgattatttattttgaaattaatgcttcaattgctattttcttttgttttattgccagGTTAAAGTTGTAGACAGAACTGCTGTTGTTACAGAAAATGCAGAAACTGTGGTTGTGAAGCCCCCTGGCCTTCGAGAAGCCATCAATGCTGAAATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ATGCTG
- - - - - - - - - - - - - agaaaaa
- - - - - - - - - - - - - - - - - ggtctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttca