Sequence
atgc intronic sequence ATGC exonic sequence...ataaaggacttatttctttttctctttgcaacttccttggttatagacttataattgtctattttgattccatatttttacccagctaaatgaatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os10g30100.1 (Oryza sativa), 3'ss of exon 9
ataaaggacttatttctttttctctttgcaacttccttggttatagacttataatt---gtctattttgattccatatttttaccc---agctaaatgaatttc-----agGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG
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---------atatttgttag-ctcagtgccatacttccagtta-aaactattaattttaatgtatactgaaatgattctgttgcaccagaattaattgatttcctccacagAATATATATAAATGGAGAGATTCCGTTGCTCGTGGCGAGGATGAGAGCACTGGTTATATATTGCCGAATAAGACGCTGCTTGAGATAG
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G118917_T01 (Zea mays), 3'ss of exon 9
ataaaggacttatttctttttctctttgcaacttccttggttatagacttataa--ttgtctattttgattcca-----------tatttttacccagctaaatg---aatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG
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gtaagtacattatccctccttttcagggcg-ttaaccaggccgcaacactgcaagtttaaacaatttacttgcaaaaaaacattctattactcttcatctaattcttccctcccagAGTCTATATCGATGGAGAGATGGCATTGCCCGTGCTGAGGATGAGAGCACTGGCTATATATTACCCAATAAGACTCTACTTGAGATAG
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G118917_T02 (Zea mays), 3'ss of exon 9
ataaaggacttatttctttttctctttgcaacttccttggttatagacttataa--ttgtctattttgattcca-----------tatttttacccagctaaatg---aatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG------------
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gtaagtacattatccctccttttcagggcg-ttaaccaggccgcaacactgcaagtttaaacaatttacttgcaaaaaaacattctattactcttcatctaattcttccctcccagAGTCTATATCGATGGAGAGATGGCATTGCCCGTGCTGAGGATGAGAGCACTGGCTATATATTACCCAATAAGACTCTACTTGAGATAGGTTTATTACTCA
upper sequence: Vv08s0056g01320.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA17G24130.1 (Glycine max), 3'ss of exon 10
------ataaaggacttatttctttttctctttgcaacttccttggttatagacttataattgtctattttgattccatatttttacccagctaaatgaatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG
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catgtcacatattgcataatttgcattttgttttggatttcgttgctc-tctattcttaac-atctattgtagttt-atatact---ctgtttttctggtttgcagGGGCTGTGTGAATGGAGGGACATTGTTGCCCGTGCAGAGGATGAAAGTACAGGATATGTATTGCCAAATAAATCTGTTCTTGAAATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacttataattgtctattttgattccatatttttacccagctaaatgaatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG
agctaaa putative branch site (score: 3)
tattttgattccatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataaaggacttatttctttttctctttgcaacttccttggttatagacttataattgtctattttgattccatatttttacccagctaaatgaatttcagGGCCTTTTTGAATGGCGAGATGTGGTTGCTCGTGCTGAGGATGAAAGTACTGGTTATATATTGCCCAACAAAACTCTTCTTGAAATCG
-taaagga
- - - - - - - - - - - - - - caacttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgattcc