Sequence
atgc intronic sequence ATGC exonic sequencegtttgtccctaaaaccctgctctaccctcaatggttttacagtctcctgattattttcagctgaattgtaattgcgattcattattcccagGAGGATTAGTCATAGGACCCATCATCAGAACCATGGACATGTTGAGAATGATGAATCATGGCATCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G11170.1 (Arabidopsis thaliana), 3'ss of exon 2
----gtttgtccctaaaaccctgctctaccctcaatggttttacagtctcctgattattttcagctgaattgtaattgcgattcattattcccagGAGGATTAGTCATAGGACCCATCATCAGAACCATGGACATGTTGAGAATGATGAATCATGGCATCCA
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gtgagttttgctttcagaccat--tcttctctaaaaccacttgcagaatctc-atcttcttcatgtaaa-----aatatgact------ttgcagGAGAATTAGTCACAGAACTCACCACCAGAACCATGGACATGTTGAGAATGACGAATCTTGGCATCCT
upper sequence: Vv13s0067g01120.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G05580.1 (Arabidopsis thaliana), 3'ss of exon 2
-----------------gtttgtccctaaaaccctgctctaccctcaatggttttacagtctcctgat---tattttcagctgaattgtaattgcgattcattattccc---agGAGGATTAGTCATAGGACCCATCATCAGAACCATGGACATGTTGAGAATGATGAATCATGGCATCCA
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gtgacttttgctttcaatcccttcaatataatacaaaccttttctctcttggtaatgaatcacttgaagaataatatcacattcttcatgacaatatttgaattttccttgtagGAGGATTAGCCACAGAACTCACCACCAGAACCATGGTCATGTCGAGAATGACGAATCATGGCATCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacagtctcctgattattttcagctgaattgtaattgcgattcattattcccagGAGGATTAGTCATAGGACCCATCATCAGAACCATGGACATGTTGAGAATGATGAATCATGGCATCCA
tcctgat putative branch site (score: 3)
ttattccc putative PPT
tgattatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttgtccctaaaaccctgctctaccctcaatggttttacagtctcctgattattttcagctgaattgtaattgcgattcattattcccagGAGGATTAGTCATAGGACCCATCATCAGAACCATGGACATGTTGAGAATGATGAATCATGGCATCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA