Sequence
atgc intronic sequence ATGC exonic sequence...cctttctgctcctctgttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA11G09480.1 (Glycine max), 3'ss of exon 5
----cctttctgctcctctgttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
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aagtgcttgttaagaagtttatccaaacttggccatagtcatttttctttgtc--tgaattttaaatcattttatt-cattaatt-aacttacatttgcttcagGAACTTGCAGGGATCATTAAACTGTCAACATACTCAAGCTTTAGCTTGTTTGAATGTCGTAAAGTTGTTACCAGCTCTAAATCACCTGATTCTGGGAATG
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA01G35950.1 (Glycine max), 3'ss of exon 6
---cctttctgctcctctgttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
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taacttggccatagtcatttttctttgtctgaattgatcttgtgtttactctatcaagtttaaatca-ttttatt-cattaatt-aacttacatttgcttcagGAACTTGCAGGGATCATTAAACTGTCAACATACTCAAGCTTTAGCTTGTTTGAATGTCGTAAAGTT----------------------------------
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA09G32740.1 (Glycine max), 3'ss of exon 6
cctttctgctcctctgttctat-tttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
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-acttcttttgaagttcttgataccccaaacccttgtgtttgtgctttataccatgaagtttatatccttttattcctcactcaacatatatttactccagGAACTTGCAGGGCTCATTAAACTGTCATCATATTCCAGCTTTAGTCTATTTGAATGTCGTAAAGTTGTTACTGGCTCCAAAGCACCTGATCTTGGGAATG
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA16G21340.1 (Glycine max), 3'ss of exon 8
cctttctgctcctctg-ttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttc-agGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
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--tgtttgtttgtttacttatgtttgaagttcttcatacctcaaacacttgtgtttatactttatactacgaagtttatatccttttattccttacctccagGAACTTGCAGGGCTCATTAAACTGTCAACTTACTCCAGCTTTAGTCTATTTGAATGTCGTAAAGTTGTTACTGGCTCCAAAGCACCTGATCTTGGGAATG
upper sequence: Vv04s0044g02020.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT5G65930.1 (Arabidopsis thaliana), 3'ss of exon 3
cctttctgctcctctgttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
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-----gtatcttcttgctttcttttttcata-atttaccgctgatcatattcttgtccctttttctctcactgcattgac---------atctgtttcaggagCTAGCTGGAACAATTAAACTATCAGCTTTCTCTAGCTTTAGTTTGTTTGAATGTCGTAAAGTTGTTTCAAGTTCTAAATCATCTGATCCCGGAAATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
tattaat putative branch site (score: 2)
tctgcttc putative PPT
ttttgtaaatcttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cctttctgctcctctgttctattttctggtatatacatttttgttctttattgagcttttgtaaatcttataatattaattcaaagcatatctgcttcagGAACTTGCAGGAATAATTAAACTCTCAGCATACTCTAGCTTCAGTTTGTTTGAATGCCGGAAAATTATTACTGGTTCTAAATCACCTGATCCTGGGAGCG
-ctttctg
- - - - ctcctct
- - - - - - - - - - - tttctgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caaagca