Sequence
atgc intronic sequence ATGC exonic sequence...cacaagggtggtgtccaatgggcagcttccaacttgactcttcataagatagactcttgttatcactgttgcttttattattatgattttggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G09430.3 (Glycine max), 3'ss of exon 9
cacaagggtggtgtccaatgggcagcttccaacttgactcttcataagatag-actcttgttatcactgttgcttttattattatgattttggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
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aaaaaaaactttatactataccaaaatgtca-catagtagcaaatgcaatgttattattatggtaactagtggagcattaatttgtggtacggtgttgtagGAGCTGCAATGTTTGACATGGAGTATGCAAGATGGTTGGAGGATGATCAGCGGCACATGATGGAGCTCCGTTCGGGGCTGCAGGTGCCGCTGCCGGACGG
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA11G19030.1 (Glycine max), 3'ss of exon 6
cacaagggtggtgtccaatgggcagcttccaacttgactcttcataagatagactcttgttatcactgttgcttttat------tattatgattt-tggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
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---aaaaacaaaactttata--ctg-taccaaaatgtcacatagtagca-atgttatttttctaactattatggtaacaaagtgtgcattaatttgtggtgttgtagGAGCTGCAATGTTTGACATGGAGTATGCAAAATGGTTAGAGGATGACCAGCGGCACATAGTGGAGCTCCGGTCGGGGCTGCAGACGCCGCTGTCGGACGG
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G39330.1 (Glycine max), 3'ss of exon 3
cacaagggtggtgtccaatg-ggcagcttccaacttgactcttcataag-atagactc--ttgttatcactgttgcttttattattatgat-tttggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
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--tcatattgtagtttaatgtgatcatatacattatcaataatggcaattattgattaagtaattgtaagaataacaagaagggttttgttatgttatgtagCAGGAGCCGCAATGTTTGACATGGAATATGCAAGATGGTTAGAAGAAGATCACAGGCTAATGGGGGAGCTGAGGAACGGGTTGCAAGCACCGTTATCAGA---
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA12G30990.1 (Glycine max), 3'ss of exon 9
--cacaagggtggtgtccaatgggcagcttccaacttgactcttcataagatagactcttgttatcactgttgcttttattattatgattttggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
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tttaatgtgatcatatataattatatataatcaataatggcaataattgattaagtaatggtaagtataatcagaatggtt-ttgttatgtta-tgtagcagGAGCCGCAATGTTTGACATGGAATATGCAAGATGGTTAGAAGAAGATCACAGACTAATGGGGGAGCTGAGGAACGGGTTGCAAGCACCGTTATCAGACAG
upper sequence: Vv06s0080g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G08320.2 (Arabidopsis thaliana), 3'ss of exon 5
cacaagggtggtgtccaatgggcagcttccaacttgactcttcataagatagactcttgttatcactgttgcttttattattatgattttggtctt---------gcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
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---gtacttgaaacctaaaacaccaattgcaatgtattattgtattaaaataagtacaataatggttaa-actattattaacaaaatgttgaaaatcgaatgtacgtagGAGCTGCAATATTTGACATGGAATATGGGAGATGGCTAGAGGATGATAACCGGCATATGTCGGAGATTCGAACCGGTCTTCAGGCTCATTTATCTGACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagatagactcttgttatcactgttgcttttattattatgattttggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
ttgcttttattattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cacaagggtggtgtccaatgggcagcttccaacttgactcttcataagatagactcttgttatcactgttgcttttattattatgattttggtcttgcagGAGCTGCAATCTTTGATATGGAATATGCAAGATGGCTCGAGGATGATCACCGGCACATGTCGGAGCTTAGAACAGGCTTGCAGGCGCATTTGTTGGATGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - ggtggtg
- - - - - - -tccaatg
- - - - - - - - - - - - - -tccaact
- - - - - - - - - - - - - - - - - - -ctcttca
- - - - - - - - - - - - - - - - - - - - - - -aagataga
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgct