Sequence
atgc intronic sequence ATGC exonic sequencegtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA20G34340.1 (Glycine max), 3'ss of exon 19
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
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gtaagtgcctttgattgctat--cttattactagtattttagttgttatcttacaaaa--ggtcttataagaactttcc--ttcaataaatcaagGCTAGAATAGATAAGACACATGAAATTCTTGAGATTGGATGTGGATGGGGAAGTTTAGCCATTGAAGTTGTCAAACAAACCGGCTGCAAATACACTGGTA
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: GLYMA10G33310.1 (Glycine max), 3'ss of exon 19
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
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gtaagtaccttt---gattgctatttta--ttagtattttagctgttatcttgcaaaa--ggtcttgtaagaattttcc-atcaaacaagGCTAGG-----ATAGATAAGACACATGAAATTCTTGAGATTGGATGTGGATGGGGAAGTTTAGCCATTGAAGTTGTCAAACAAACCGGCTGCAAATACACTGGTA
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT3G23480.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCA--TGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA---
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gtaagatctataggagatcattttctatatttttaacaagaaccactgttttttc---tttgtttttta-gtgatcaaa-atttggaaatttcaggcgagGATAAAGAAGAACCATATGAGGTTTTAGAGATAGGATGCGGATGGGGAACTTTAGCCATAGAAGTTGTGAAAAGAACTGGATGCAAATACACTGGCTTTA
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT3G23480.2 (Arabidopsis thaliana), 3'ss of exon 8
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCA--TGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
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gtaagatctataggagatcattttctatatttttaacaagaaccactgttttttc---tttgtttttta-gtgatcaaa-atttggaaatttcagGCGAGGATAAAGAAGAACCATATGAGGTTTTAGAGATAGGATGCGGATGGGGAACTTTAGCCATAGAAGTTGTGAAAAGAACTGGATGCAAATACACTGG--
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT3G23470.1 (Arabidopsis thaliana), 3'ss of exon 8
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaatta--attttctatgtgttttcccatc-taaccaacct-agGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
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gtaaggtctacaggagacattttcttgatttataacaagaagtcaagagtacacgtattttttatttgttctttaatgatcaattgtgggaaatttcagGCGAGGATAGAGAAGAACCATGAGGTCTTAGAGATGGGATGCGGATGGGGAACTTTTGCCATAGAAGTTGTGAAAAGAACTGGATGCAAATACACTGGCA
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT3G23510.1 (Arabidopsis thaliana), 3'ss of exon 16
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
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-----------gtaaagcattttcttga-tttagaac--aacagcttgtgatttttttgtttctcttctcgaataaccgaagagggacatttcagGCGAGAATAGAGAAGGACCATGAGGTTTTAGAGATAGGATGTGGATGGGGAACTTTGGCCATAGAAGTTGTGAGAAGAACTGGATGCAAATACACCGGCA
upper sequence: Vv05s0049g01650.t01 (Vitis vinifera), 3'ss of exon 18
lower sequence: AT3G23530.1 (Arabidopsis thaliana), 3'ss of exon 16
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
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-----------gtaaagcattttcttga-tttagaac--aacaacttgtggtttt---ttatctcttcttgaataaccgaagagggacatttcagGCGAGAATAGAGAAGGACCACGAGGTTTTAGAGATAGGATGTGGATGGGGAACTTTGGCCATAGAAGTTGTGAGAAGAACTGGATGCAAATACACCGGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
atctaac putative branch site (score: 2)
aaaattaattttctat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtcttttctgcaacaactgcttgaattttgaattgattttcttgccatgcaaaattaattttctatgtgttttcccatctaaccaacctagGTACGAATTGATAAGAAGCATGAAGTTTTAGAGATTGGTTGTGGTTGGGGAAGTTTAGCTATTGAAGTTGTGAAACGAACTGGATGCAAATACACTGGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG