Sequence
atgc intronic sequence ATGC exonic sequencegtatgctactatttctctctcactctcttcaaaaacatggttcttatacttcaatcacaacccattacgcataaatgttgggaaaatcacctaaactcacactctagttgcaccaccgtcactcattttttgcagTTTATTCAAGGAATGCCCACACCCAGATGACAAGCAGAGGATGAAACTCAGCCAAGAACTTGGCCTCAAACCACGCCAAGTCAAGTTTTGGTTCCAAAAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os10g42490.1 (Oryza sativa), 3'ss of exon 3
-----gtatgctactatttctctctcactctcttcaaaaacatggttcttatacttcaatcacaacccattacgcataaatgttgggaaaatcacctaaactcacactctagttgcaccaccgtcactcattttttgcagTTTATTCAAGGAATGCCCACACCCAGATGACAAGCAGAGGATGAAACTCAGCCAAGAACTTGGCCTCAAACCACGCCAAGTCAAGTTTTGGTTCCAAAAC
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gtacggttttcatctccatcttcttcttcctcttcaatgccattgccagc-cgtttcgatcg--attcgtctccattaaaccttgctgatattgtg-atactgaca----agtggcgtgcatg-catccatccat-gcagGCTGTTCAAGGAGTGCCCGCATCCGGACGACAAGCAGCGGCTGAAGCTGAGCCAGGAACTGGGCCTCAAACCTCGCCAGGTCAAGTTCTGGTTCCAGAAT
upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA01G01850.1 (Glycine max), 3'ss of exon 2
gtatgctactatttctctctcactctcttcaaaaacatggttcttatacttcaatcacaacccattacgcataaatgttgggaaaatcacctaaactcacactctagttgcaccaccgtcactcattttttgcagTTTATTCAAGGAATGCCCACACCCAGATGACAAGCAGAGGATGAAACTCAGCCAAGAACTTGGCCTCAAACCACGCCAAGTCAAGTTTTGGTTCCAAAAC
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-------------------------------tagatctctctcttttgtttcctttgtgataaa--actgaaactgatcaaggttttaatttgttgttgttcatt-gtttcatgtgtaatg-taacatttggcagTTTGTTCAAGGAATGCCCACACCCTGATGATAAGCAGAGGCTGAAACTGAGCCATGAATTGGGTCTTAAACCGCGCCAGGTCAAGTTCTGGTTCCAGAAC
upper sequence: Vv02s0012g02030.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G34070.1 (Glycine max), 3'ss of exon 2
gtatgctactatttctctctcactctcttcaaaaacatggttcttatacttcaatcacaacccattacgcataaatgttgggaaaatcacctaaactcacactctagttgcaccaccgtcactcattttttgcagTTTATTCAAGGAATGCCCACACCCAGATGACAAGCAGAGGATGAAACTCAGCCAAGAACTTGGCCTCAAACCACGCCAAGTCAAGTTTTGGTTCCAAAAC
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------------------------------ataaatattaattgttagc----attattatttttgtaagttgaaaattcgaactgcaatcttttttc-ctttatcactaaactaaccttatatttttttggcagTTTGTTCAAGGAATGTCCACACCCGGATGATAAGCAGAGACTGAAACTGAGCCATGAATTGGGTCTTAAACCGCGCCAGGTCAAGTTCTGGTTCCAGAAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggaaaatcacctaaactcacactctagttgcaccaccgtcactcattttttgcagTTTATTCAAGGAATGCCCACACCCAGATGACAAGCAGAGGATGAAACTCAGCCAAGAACTTGGCCTCAAACCACGCCAAGTCAAGTTTTGGTTCCAAAAC
aactcac putative branch site (score: 2)
ctcatttttt putative PPT
tcatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgctactatttctctctcactctcttcaaaaacatggttcttatacttcaatcacaacccattacgcataaatgttgggaaaatcacctaaactcacactctagttgcaccaccgtcactcattttttgcagTTTATTCAAGGAATGCCCACACCCAGATGACAAGCAGAGGATGAAACTCAGCCAAGAACTTGGCCTCAAACCACGCCAAGTCAAGTTTTGGTTCCAAAAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC