Sequence
atgc intronic sequence ATGC exonic sequence...gtaatcagccaaaagagatactttcatacttaaaaatgatgcttttgtaaattggtctggtaggagggtctcctattttaatagtctcatttttttgcagGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G01940.1 (Glycine max), 3'ss of exon 9
gtaatcagccaaaaga--gatactttcatacttaaaaatgatgcttttgta---aattggtctggtaggagggtctcctattttaatagtct-catttttttgcagGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
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------ggtgaagacactcaagctttccatctaaagcttctttctattatatttaactgatttaaatggaccatggcatgtgtaagtctttttcttttcctcgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTCACTGGGTGGGGTAGACGACCGGCAGCACTACGAGCTCTTAGCCAAAGAT
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA08G21610.1 (Glycine max), 3'ss of exon 10
gtaatcagccaaaagagatactttcatacttaaaaatgatgcttttgtaaattggtctggtaggagggtctcctattttaatagtctcatttttttgc--agGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
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-aaggcagtcaagcttttca-tctgaagcttcttcatattgttatatttaactgatttaaaaggactatggcatgtttaagtcttttttcttttccacgtagGCCCTACGTCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAATGTCACTGGGTGGGGTAGACGACCAGCGGCACTACGAGCTCTTAGCCAAAGAT
upper sequence: Vv09s0002g03740.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA07G01950.1 (Glycine max), 3'ss of exon 9
-----------------------------------------------------------------gtaatcagccaaaaga-gatactttcatacttaaaaatgatgcttttgtaaattgg-tctggtaggagggtctcctattttaatagtctcatttttt-tgcagGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
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gtatggttgttatgtctcttttccttgtgatacaactgcatgtataatgtgtttctttttgtcctatttatgtctatatgataatatttagttttatagtatcaatagtattgattattggatttcaaaggactatggcttgcttaattctttttcttttttacatagGCCCTACGCCATCTAAGGCAGATTTCACATGAAGTTTCTCAGTCCAACGTCACTGGGTGGGGTAGGAGACCAGCAGCACTACGAGCTCTTAGCCAAAGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtaaattggtctggtaggagggtctcctattttaatagtctcatttttttgcagGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
ttttaat putative branch site (score: 3)
tctcatttttttgc putative PPT
tattttaatagtctca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatcagccaaaagagatactttcatacttaaaaatgatgcttttgtaaattggtctggtaggagggtctcctattttaatagtctcatttttttgcagGCTTTGCGCCAGCTGAGACAAATAGCTCAGGAGGTTTCTCAGTCTAATGTCACTGGTTGGGGTAGACGACCTGCAGCACTGCGAGCGCTTAGCCAGAGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - agccaaa
- - - - - - - - - - - - - - - taaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - -ggtctgg