Sequence
atgc intronic sequence ATGC exonic sequence...tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggacactgttttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA07G32180.1 (Glycine max), 3'ss of exon 9
tccttgtctcactgttatttaggtaaaagtgta-attttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggac---actgttttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
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--gcagttttgtggatgtactgatttccttttgtactttagataattgcttgaat-taaggcttctgaatttaaggtttgaaatctgtactgttctatttc-agGTTTGGAGATTTTTGATCAACTTTGCTGATGTTCTAGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
upper sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G24370.1 (Glycine max), 3'ss of exon 8
tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggacactgtt--ttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
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--gcagttttgtagatgtactgatttcctttcatactttagataattgctggaattaaggcttctaaatttaaggtttgaaagctgtactggtctatttcagGTTTGGAGATTTTTTATTAACTTTGCTGATGTTCTGGAGTTATGGTCTTTTACTCTAGATGAGTTTGTTCAAGCATTTCATGACTAT
upper sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA13G30860.1 (Glycine max), 3'ss of exon 8
-tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggacactgttttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
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agactgaggtcattcttgttgttctttatttgttttttaagcttaaattgaggattctgaatttaaagttcaaaagctgtggtctattgttctatttc-agGTTTGGAGATTCTTGATTACTTTTGCTGATGTACTTGATTTATGGCCTTTTACTCTTGACGAGTTTGTACAGGCATTTCACGACTAT
upper sequence: Vv10s0003g00290.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT1G28420.1 (Arabidopsis thaliana), 3'ss of exon 8
--------------------------------------------------------tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgt----atatagcatgtctgatcttg-aggtttaagg------acactgt--tttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
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gtatgttgtattgatctttaccctctctccggctgctacctctcatttaaaattagtattatgatcagaataacttggagaccaatttgaaatcagttggatttgtttttccgtgtattatgcacccttttgcagatttcacatatcttatgttgtgattgcttttcagGTTTGGAGATTCCTGATATCATTTTCTGATGTTCTTGACCTATGGCCTTTTACACTGGATGAGTTTATTCAGGCTTTTCATGACTAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcatgtatatagcatgtctgatcttgaggtttaaggacactgttttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
gtctgat putative branch site (score: 4)
cactgttttttcccc putative PPT
tgtttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tccttgtctcactgttatttaggtaaaagtgtaattttgtctaaaatcatgtatatagcatgtctgatcttgaggtttaaggacactgttttttccccagGTCTGGAGATTTTTAATCACTTTTGCCGATGTGCTTCAGTTATGGCCTTTTACTCTTGATGAGTTTGTCCAAGCTTTTCATGACTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - -ctcactg
- - - - - - - - - - -ggtaaaa
- - - - - - - - - - - - - - - - - - - - - aaaatca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -gcatgtc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gacactg