Sequence
atgc intronic sequence ATGC exonic sequencegtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: LOC_Os05g38950.2 (Oryza sativa), 3'ss of exon 9
gtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatg-gccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
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-----------------------------------------------------------------------------------tgtaagcataaccttgtttggtgtaacagcctcgta--catattctgcttggaagaaaaatgacaccatgtttatt--tctatatgttgtttgaacattttcagTTCTCCGTGTCTGGGATGTCCTTCTGTTTGATGGGAATCGTGTGATGCTATTCCGGACAGCTCTTGCACTACTTGAGTTTTATG
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA10G44110.1 (Glycine max), 3'ss of exon 9
gtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctat-ttatatttctttgatt-tatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
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---------------------------------------------------------gtcaggttttatgttctatctatttagtagtgtagcctagtcttacttcacaaagttgccaatgtgaaatgagcatttgtacgctattgtttgagcttccttctgatccattgtaattatttggacttcagTTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATG
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GLYMA20G38810.1 (Glycine max), 3'ss of exon 9
gtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
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----------------------------------------------gtcaggttttatgttctatctattgag--tagcgtagcttagtattgcttcacaaa-------gttgccaatgtcaaatgagcatttgtacactattgttcgagcttccttctgatctattgtaattatttggacttcagTTCTTCGAGTGTGGGATGTGCTTCTTTTTGAAGGAAACCGAGTCATGCTCTTTAGAACTGCAGTTGCTTTAATGGAGCTATATG
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT2G39280.1 (Arabidopsis thaliana), 3'ss of exon 9
gtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
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--------------------------------------------------------------------gtcaggtttttagaaattggaatt------ttaaactt--tacttttagaggaa-aattgtttatatactcttacgttttctgaatgtcagtctcaaatatcttctttggtataacagTTCTCAGAGTGTGGGATGTGCTTCTATTTGAAGGAAATCGTGTTATGCTTTTCAGAACAGCACTCGCATTGATGGAATTTTATG
upper sequence: Vv13s0067g03420.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: AT3G55020.1 (Arabidopsis thaliana), 3'ss of exon 9
gtcagtctccatcatggcttatata--gaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
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----------gtcaggttttaaacattggaattaaa-gctgtcttgt-ttgaaatagaattgagtaactagtaaattatgctggcaatctgttaa-------aatttgatcatctttctctttgagatttgggac-tgagaacccattttc---tttctaaatgtt-----cgtcttcttgatcacagTTCTTAGAGTCTGGGATGTGCTTCTCTTTGAAGGAACTCGTGTTATGCTTTTCAGAACAGCACTCGCATTGATGGAACTATATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
tcctgac putative branch site (score: 2)
ctttctcctgacttc CT-rich tract
ttttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtcagtctccatcatggcttatatagaaattagatgttatttggggcctacattgcatttaaaatctatttatatttctttgatttatggccatctcactaatcttagcattctcattgtcatgattgcattcataatgtcttggttacaagcttatgggttttgatggctttctcctgacttcagTTCTCCGGGTCTGGGATGTGCTTCTTTTTGAAGGAAACCGTGTCATGCTATTTAAAACAGCACTTGCTTTGATGGAGTTATATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA