Sequence
atgc intronic sequence ATGC exonic sequencegtcagtaaatttcagattcagtgactaggaaaacagctaaaattggaaagatccaatgtatatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os12g36170.1 (Oryza sativa), 3'ss of exon 6
----------------------------gtcagtaaatttcagattcagtgactaggaaaacagctaaaattggaaagatccaatgtatatgtata-tgatttttttttcttt--tccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
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gtaaaatatgtagaaattcctcatgcgtttttgagaaaaaaaaagatatccactttgcaaaaagctgtgcttcatcctctcctgagttctatcatggttatttttttctttttgctgcagAGGCACTGACGAAAGGTCGAGGTCGAAAAGAATGCACATATATGTATCTCTGCTGAAGCAAATGGCACCAGAGCACCTTTTAGCTACGTCTGCCAAGTTA
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G571844_T01 (Zea mays), 3'ss of exon 5
gtcagtaaatttcagattcagtgactaggaaa-acagctaaaattggaaagatccaatgta--tatgtatatgat-ttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
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gtaaaacaactcaaactgttcttcttagtccttgcaagagagatgcttcattcctagcttaattttttttatcacgctcattcttttttgcagTGGCACTGATGAAAGCACGAGGTCAAAGAGAATGCACATTTATGTCTCTTTGCTGAAACAAATGGCACCAGAGCATCTTTTAGCCACGTCGGCCAAGTTA
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA09G04940.1 (Glycine max), 3'ss of exon 8
gtcagtaaatttcagattcagtgactaggaaaacagctaaa-attggaaagatccaatgtatatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
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-gtaatgggacccaaaattagcaattggcaagacagttaattatttgagatattgcactgatat---caagtctgcattgatcttcgcagGGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCCCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G15920.1 (Glycine max), 3'ss of exon 7
gtcagtaaatttcagattcagtgactaggaaaacagctaaa-attggaaagatccaatgtatatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
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gtaatgggaccccaaatt-agcaattggcaagacagttatttatttgagatattgcactgatat---caaatctgcattgttctttgcagAGGTACTGATGAAGAGTCAAGGTCTAAAAGAATGCACATTTATGTTTCTTTACTAAAACAAATGGCTCCTGAGCATCTTCTAGCAACCTTTGCCAAGTTA
upper sequence: Vv05s0020g01160.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT4G15890.1 (Arabidopsis thaliana), 3'ss of exon 8
------gtcagtaaatttcagattcagtgactaggaaaacagctaaaatt--ggaaagatccaatgta-tatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
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gtacttgtgttaaagttatatagtctatgctcatacgcaaacttgacattttggtgtgaatgatcttagtgattatctttgtttcatttgttctgtagAGGGAATGATGAAAGGGCTAGGTCTAAAAGAATGCAGATCTACGTTACTTTGCTTAAACAAATGGCCCCAGAACACCTTTTGGCCACATTCGCCAAGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agctaaaattggaaagatccaatgtatatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
agctaaa putative branch site (score: 3)
tatgatttttttttct putative PPT
aatgtatatgtatatg 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtaaatttcagattcagtgactaggaaaacagctaaaattggaaagatccaatgtatatgtatatgatttttttttcttttccagAGGTAATGATGAAAAGTCAAGATCTAAAAGAATGCACATCTATGTTTGTTTGCTGAAACAAATGGCCCCAGAGCACCTTTTAGCTACTTTTGCTAAGCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA