Sequence
atgc intronic sequence ATGC exonic sequence...tggtttataatatttgtcaagagagatgcattttttatttaactatgattacaagaaaatttctgaactgttcaaacatttttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os01g72980.1 (Oryza sativa), 3'ss of exon 6
----------------------------------------tggtttataatattt--gtcaagagagatgcattttttatt--taactatgattacaagaaaatttctgaactgttcaaacatt--tttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
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gtataattctaccatctgagttttttagtttgttaaatggcagattattctattttagtacgtgtaatcaaacttattattgctaaggaagaggttgttcacgttatggcacaatcatgaggataaccagactatctttgcttcagATTGTAAGGTTCAAAGACAAAGAGTCCCATCAGGTATTTCTTGAACCAGAGGGCAGAGATGTTCCTGAGCTTTATCTGCAG
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G481548_T01 (Zea mays), 3'ss of exon 6
---------------------------------------------------tggtttataatatttgtcaagagagatgcattttttatttaactatgattacaagaaaatttctgaactgttcaaacatttttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
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gtaatgtataatggaccttgttggtttgttacatggcaaacttcttttattttgattattggatt-gccaacagaacttgtattttttcttgcaaaaaatta-agtactatacctacaacgactga-tgtacccactaacccttgttgcagATTGTAAGGTTCAAAGATAAAGAGTCTCATCAGATCTTTCTTGAACCTGAGGGTAGAAATGTTCCTGAACTATATCTACAG
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G00380.1 (Glycine max), 3'ss of exon 5
--------------------------------------------------------------------------------------------tggtttataat--atttgtcaagagagatgcattttttatttaactatgattacaagaaaatt-tctgaactgttcaaacatttttttttttggtgg-tttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
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gtgtgtttcaaaaaagctaccttggttttcttcatatcagtttaatatgtgtatgtacctgattaactatagttaccatttcattccatactcagattgaacctgaaccatttagaaaaaggggtctgaaacatcagataaactatattggaatcatttgtattattttatgatgtgatatattgttcactttcagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAATGTGCCTGAGCTCTATGTGCAG
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA05G32720.1 (Glycine max), 3'ss of exon 3
---tggtttataatatttgtcaagagagatgcattttttatttaactatgattacaagaaaatttctgaactgttcaaacatttttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
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gtgtgtttcaaaaaagctaccttg-gttttgaaacatcagatcaactat-attggaatcgtttttattattttctgatgtgatatattgttcactt-ttttagATTGTAAGATTCCAAGATAAAGAGTCTCATCAAATATTTCTTGAACCTGAGGGTCGAAGTGTGCCTGAGCTCTATGTGCAG
upper sequence: Vv04s0044g01690.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT2G13440.1 (Arabidopsis thaliana), 3'ss of exon 6
-tggtttataatatttgt-caagagagatgcattttttatttaactatgatta---caagaaaatttctgaactgttcaaacatttttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
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cttgcatttgctttttctacagttggcacaaagaataagttgaaccatctttctctttaaactgcttttgatgaacttaaaaaatcttgttt-----ggtttcagATTGTTAGGTTCAAAGACAAAGAGTCTCATCAAATATTCCTCGAACCAGAGGGCCGAGATGTTCCTGAGATCTATGTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattacaagaaaatttctgaactgttcaaacatttttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
tttttttttttggt CT-rich tract
tgttcaaacatttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tggtttataatatttgtcaagagagatgcattttttatttaactatgattacaagaaaatttctgaactgttcaaacatttttttttttggtggtttcagATTGTGAGATTTCAAGATAAAGAGTCTCATCAGATTTTTCTTGAACCAGAAGGTCGAAATGTGCCTGAGCTCTATGTGCAG
- - - - - - - - -caagaga
- - - - - - - - - - - - gatgcat
- - - - - - - - - - - - - - - - - - - - - - - - - - aagaaaa