Sequence
atgc intronic sequence ATGC exonic sequence...aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttttttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: LOC_Os03g48300.3 (Oryza sativa), 3'ss of exon 17
-aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttttttttaaattgttattgtatg-taattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
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gtatcatcttggttttcttttctcttttttttttttttaaaaaaagtttatttcttgtactcaatattcttttctta--ctagtatgttatcctgaatatagGTGAAGGAACTGGTTTGCTTCGCCTTCATAGCACGTACAGACATGATTTAAAAATATACAGTTCAGATGAAGGCCGTGTGCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA19G02260.1 (Glycine max), 3'ss of exon 15
aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctct-tggtgattt-ttttttttttttttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
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--atgtttcatacaggatcatgtattcttattacatgtagcatcaacttgacagtggcttgtactatgtataaaggcaaaattttgtgttttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA13G05060.1 (Glycine max), 3'ss of exon 19
aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttttttt----taaattgttat--tgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
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----gtttcatacaggatcatgcattcttattacatgtaaca--tcaacttgacagtgtcttgtagtatgtataaaggcaaatttttgtgtggtttaaaattgcagGAGAAGGTACAGGGCTTCTTCGCCTCCATAGTACATACCGTCATGATCTCAAGATTTACAGCTCTGATGAGGGTCGTGTGCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA09G37610.1 (Glycine max), 3'ss of exon 15
-aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttt--tttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
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tgataggttt-caaatatgatttttcat-tgttcttgtaatatagacatgacaatggattgtaccatgcatgacatgcaaattaaattcttaaatg-tcgcagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGTCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: GLYMA18G49000.1 (Glycine max), 3'ss of exon 17
aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttct---cttggtgatttttttttttttttttttaaattgttattgtatg--taa---ttgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
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--------ggtatgtttcaattatgatttttcattgttcttgtaatatagacatgacaaacagattgtaccatgcatgacatgcaaattaaattcttaaatgttgaagGAGAAGGTACAGGGCTGCTTCGCCTCCATAGCACATACCGCCATGATCTTAAGATATACAGCTCTGATGAGGGTCGTGTGCAG
upper sequence: Vv14s0066g02540.t01 (Vitis vinifera), 3'ss of exon 17
lower sequence: AT3G01310.1 (Arabidopsis thaliana), 3'ss of exon 18
--------aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttttttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
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gtaagggaacttgatctacttatatttgttactttccacaggagtttagtg-tactcgtgacgatcagtatattttctaagt-atctcacgatgaaatggcat-gcagGTGAAGGGACTGGTTTGCTTCGTCTCCATAGTACGTACCGTCATGACCTTAAAATTTACAGCTCTGACGAGGGACGTGTTCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctcttggtgatttttttttttttttttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
attttttttttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatccttttgtgtggatgaattaatacctgtggtcttcctctgcttctcttggtgatttttttttttttttttttaaattgttattgtatgtaattgcagGTGAAGGCACTGGCCTGCTTCGCCTTCATAGTACTTATCGTCATGATCTAAAAATTTACAGCTCAGATGAGGGTCGTGTACAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- -ccttttg
- - - - - -gtggatg
- - - - - - - - - - - - tacctgt