Sequence
atgc intronic sequence ATGC exonic sequencegtttgtttttcattgattgtcaaaagtggccatgtcgctttataattttttgttgcgcagaggtatttaatctgtgtacatttcatcttttgtttctgctcaatagGCAATCAAAGAATTAAACCTCAAAACCAAGAACTGGAAGGAGCTCCTCACCGATGAACCATTCACTAGAGAAGACCTCATAACAATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G05130.1 (Glycine max), 3'ss of exon 4
gtttgtttttcattgattgtcaaaagtggccatgtcgctttataattttttgttgcgcagaggtatttaatctgtgtacatttcatcttttgtttctgctcaatagGCAATCAAAGAATTAAACCTCAAAACCAAGAACTGGAAGGAGCTCCTCACCGATGAACCATTCACTAGAGAAGACCTCATAACAATTCAG
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gtttgtttttcag-gatccttagtgttaataatgc-------taatttctt---------aagcagatgatatttatat-ttatataagttatttatgggaattagGCTGTTAAAGAGTTAAATATTAAGACAAAAAACTGGAAGGAGCTCCTCACCGATGAGCCATTCACTAAGGATGACCTTATAACCATTCAA
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G40170.1 (Glycine max), 3'ss of exon 4
gtttgtttttcattgattgtcaaaagtggccatgtcgctttataattttttgttgcgcaga-ggtatttaatctgtgtacatttcatcttttgtttctgctcaatagGCAATCAAAGAATTAAACCTCAAAACCAAGAACTGGAAGGAGCTCCTCACCGATGAACCATTCACTAGAGAAGACCTCATAACAATTCAG
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gttcgtttttcag-gatccttagtgttaataatgc-------taatttcttat---gtagatggtattta---tattta---------tctaagttatgggaattagGCTGTTAAAGAGTTAAACATTAAGACAAAAAACTGGAAGGAGCTCCTCACTGATGAGCCATTCACTAAGGATGACCTTATAACCATTCAA
upper sequence: Vv07s0129g00040.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT5G67530.1 (Arabidopsis thaliana), 3'ss of exon 4
gtttgtttttcattgattgtcaaaagtggccatgtcgctttataattttttgttgcgcagaggtatttaatctgtgtacatttcatcttttgtttctgctcaatagGCAATCAAAGAATTAAACCTCAAAACCAAGAACTGGAAGGAGCTCCTCACCGATGAACCATTCACTAGAGAAGACCTCATAACAATTCAG
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-------------------------------gtttgtttttttttttttttgctttgctta--tttttggtttcgatgattcttattgttgctgtgtaaatt-tagGCAATCAAAGAGTTGAATATCAAAACCAAGAATTGGAAGGAGCTTTTAACTGAAGAACCATTTACAAGAGCCGACCTTATAACAATTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gttgcgcagaggtatttaatctgtgtacatttcatcttttgtttctgctcaatagGCAATCAAAGAATTAAACCTCAAAACCAAGAACTGGAAGGAGCTCCTCACCGATGAACCATTCACTAGAGAAGACCTCATAACAATTCAG
atttaat putative branch site (score: 4)
tttcatcttttgtttc putative PPT
tatttaatct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtttttcattgattgtcaaaagtggccatgtcgctttataattttttgttgcgcagaggtatttaatctgtgtacatttcatcttttgtttctgctcaatagGCAATCAAAGAATTAAACCTCAAAACCAAGAACTGGAAGGAGCTCCTCACCGATGAACCATTCACTAGAGAAGACCTCATAACAATTCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTCCTC