Sequence
atgc intronic sequence ATGC exonic sequencegttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattatggggatccgttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os02g08360.1 (Oryza sativa), 3'ss of exon 3
gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattatggggatccg-ttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
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---------------------------gttagtgatatggtttac-attttcatataccttgttgtagttg-gctttactctt--tgtagattgaaaatcatgatggatatatacattgtttcttctattgctccaattaatcaagagaccggcctttttattcattcggcaatggcagGTGGAAAGTCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G174785_T01 (Zea mays), 3'ss of exon 3
gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattatggggatccgttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
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---------gttagtggaaggggtttcatttttgcatac-----------tttctcatagttgccttcccactctgtagtttcaat---atcttccaagatggatatatgcattgtttctt--ttatcgct-ccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G133308_T02 (Zea mays), 3'ss of exon 3
gttagtatggttaaggaactatgtattttccttgctttcaattattgat-tttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattatggggatccgttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
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---------------------gttagtggcaggggtttcatttttgcatactttctcatagttgctttcccactctgtagtttcaat---atcttccaagatggatatatgcattgtttctt--ttatcgct-ccaattgatcaagagatcggcctttttattcattcggcaatggcagGTGGAAAATCCAAAGATGGGGGGTCTGTTCCAAAGAAGGGCAGTAG
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G34030.2 (Glycine max), 3'ss of exon 3
gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattat---ggggatccgttaataaaaatatggaccttttt-attcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
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gttagtatgactcttgaattctgtatttctctctcctactatttatattccttt------tgtt-tcatctcttggaagttatacatgtttttcgtgttctggatatacatagttttttgctattattttatataattgttgataaaagtatggaccttttttattccttcgtggatgacagGTGAAAAGTCTAAAGATGGGGTATCTGGTCCAAAGAAGGGAAGTAG
upper sequence: Vv04s0008g06810.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT5G25060.1 (Arabidopsis thaliana), 3'ss of exon 2
gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatacta--tggatatatgaataattttttcattatggggatccgttaataaaaatatggaccttttt---attcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
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gttagtctttgcaaagg-ctacacagctttttaactgtttgtttacaattgcttct------ctctttgtgtgtactt-tgttctttttgattggtgtcaaatggttagagcaatgctttgattatattgggaacgcattaataagtgtatggaccttttttctatgcgttcgcggatggcagGTGAAAAGTCCAAAGATGGGGGTTCGGTTTCAAAGAAGGGGAGTAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatggggatccgttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
cgttaat putative branch site (score: 4)
ttaataaaaatatgga 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagtatggttaaggaactatgtattttccttgctttcaattattgattttttacaaagtattcttgttatgttttagtcttgtttttgtttcatactatggatatatgaataattttttcattatggggatccgttaataaaaatatggacctttttattcattcgcaaatggcagGTGAAAAGTCGAAAGATGGGGTATCTGTTCCAAAGAAGGGAAGTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG