Sequence
atgc intronic sequence ATGC exonic sequence...ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: LOC_Os07g45160.1 (Oryza sativa), 3'ss of exon 11
----------ctactgctggagga---tacgcgttagtctaagtgatgtgttccaaagtgtcatatgattc--ttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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gtagttacatttatttcttggtgtcattacatgtttatttatttcg-acaccttaagttcccaaaaaatttcatcctcaagcc-------accttttcttttctgc-----ccagATAAGGCTCCACATTATAGCAATGCATGAATTATGCGAGTACAACAAGGGAGAAGGGTTTTCAGAAGGTTTTGATGCACATCTTAACATCGAGCAGATGA
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G429213_T01 (Zea mays), 3'ss of exon 5
ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttct------gatttctgtgggtgc-cagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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-------attttgtcatgtgtttatttcatcagccactatgaatttattctgtgggcacccttatttcctggaatgtttcatcttgaagctgtcttttgttgagcagATAAGGCTCCACATAATTGCGATGCATGAATTATGTGAATACAACAAAGGAGAAGGTTTTTCCGAGGGTTTTGATGCACACCTCAACATTGAGCAGATGA
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G429231_T02 (Zea mays), 3'ss of exon 5
ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttct------gatttctgtgggtgc-cagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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-----gtttt--gtcatgtgtttatttcatcagccactatgaatttattctgtgggcacccttatttcctggaatgtttcatcttgaagctgtcttttgttgagcagATAAGGCTCCACATAATTGCGATGCATGAATTATGTGAATACAACAAAGGAGAAGGTTTTTCCGAGGGTTTTGATGCACACCTCAACATTGAGCAGATGA
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GRMZM2G429231_T01 (Zea mays), 3'ss of exon 14
ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttct------gatttctgtgggtgc-cagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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-----gtttt--gtcatgtgtttatttcatcagccactatgaatttattctgtgggcacccttatttcctggaatgtttcatcttgaagctgtcttttgttgagcagATAAGGCTCCACATAATTGCGATGCATGAATTATGTGAATACAACAAAGGAGAAGGTTTTCCCGAGGGTTTTGATGCACACCTCAACATTGAGCAGATGA
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA15G10760.2 (Glycine max), 3'ss of exon 4
---ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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aatttggtgtttatcaattt-catatttatatattgcttgttgcaaagcagtatctggtgattacaaaggctaatgaagctgt-tgatttctgtggtt-tcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCTGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: GLYMA13G28300.1 (Glycine max), 3'ss of exon 6
---ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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aaagagcagttagtttaatctagaacatgcatatgct-tgttgccaagcagtatctgatgattgcaaaggctaatgaagctgt-tgatttctgtggtt-tcagATAAAATTACATATCATTGCAATGCATGAATTATGTGAATACACTAAAGGAGAAGGATTTTCCGAGGGCTTTGATGCTCATCTCAATATTGAACAGATGA
upper sequence: Vv05s0020g02350.t01 (Vitis vinifera), 3'ss of exon 7
lower sequence: AT3G06290.1 (Arabidopsis thaliana), 3'ss of exon 12
ctactgctggaggatac-gcgttagtctaagtgatgtgttccaaagtgtcatatga--ttcttctcaagactaagagagttttctgatt--tctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
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-----gtttgtgttttctgatcttatataaatctcattaaacaggatgataaacaatattcttttttaaatgcgtgtgttcttactattgattttcctgttacagATTAGACTTCACATCATTGCAATGCATGAGCTATGTGAATATACTAAAGGAGAGGGCTTTTCGGAGGGGTTTGATGCACACCTGAATATTGAGCAGATGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtcatatgattcttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
ttctgat putative branch site (score: 3)
tttctgt CT-rich tract
tatgatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctactgctggaggatacgcgttagtctaagtgatgtgttccaaagtgtcatatgattcttctcaagactaagagagttttctgatttctgtgggtgccagATAAGACTTCATATAATAGCCATGCATGAATTATGTGAATACACAAAAGGAGAGGGATTTTCTGAGGGATTTGATGCACACCTCAATATTGAGCAGATGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- actgctg
- - - - - - - - - - - - - - - - -tgtgttc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taagaga