Sequence
atgc intronic sequence ATGC exonic sequencegttggtacatcatatgctcaagttgtggacaaggattggttgtgggatttagtagacagtttctttttattgaaatttgatctattttgtgttttctcctcacaatcagcatgcattgtgtatcatgtccataaattctgttgtatgggttcttgattcttctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G24260.1 (Glycine max), 3'ss of exon 3
gttggtaca-tcatatgctcaagttgtggacaaggattggttgtgggatttagtagacagtttctttttattgaaatttgatctattttgtgttttctcctcacaatcagcatgcattgtgtatcatgtccataaattctgttgtatgggttcttgattcttctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
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gttggcacaaccttacttatatgtgtttcttgggttttagatgtcatgatcaatttgcgagtttgttatagagcaatgcgtgaaactttattccttcttctc-ctcccagctt---ttgtgaatt-----------tcttgctgcaa--------------ttggaacactgatgctattttttttgctcagATGGGTGGTATCGATGAGGCTTCCCTTGATCGTCTTTCTCTTGTCACCCAAATGACAAAGCACATTCGTGTTAGAGCATCTGGAGGAAAGACTTCTGCGT
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G32290.2 (Glycine max), 3'ss of exon 3
gttggtacatcatat----gctcaagttgtggaca-aggattggttgtgggatttagtagacagtttctttttattgaaatttgat--ctattttgtgttttctcctcacaatcagcatgca-ttgtgtatcatgtccataaattctgttgtatgggttcttgattct--tctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
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gttggcacagcctattcaagtctatattttcgttgtataattgcttgtat--ttttactttttgtttcttggtttttacatctcatgatttatttgcgagtctgttatagagcaagcgtgaaactttattccttcttcttcttgcaacttttgtgaatttcttgctgcaattggaatgctgatgctatttcttttgctcagATGGGTGGTATCGATGAGGCTTCCCTCGATCGCCTTTCTCTTGTCACCCAAATGACAAAGCACATCCGTGTTAGAGCATCAGGAGGAAAGACTTCTGCGT
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA13G30780.1 (Glycine max), 3'ss of exon 3
gttggtacatcatatgctcaagttgtggacaaggattggttgtgggatttagtagacagtttctttttattgaaatttgatctattttgtgttttctcctcacaatcagcatgcattgtgtatcatgtccataaattctgttgtatgggttcttgattcttctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
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--------------------------------------gttggggcaactcatggaatcctatatttagtcataattgagagtgctttta--cttctccatattatttg-atttttaacgattagtgaccag----tttgtgg-gtccactaccgagcatacaaatttattccctcttctctcttgtctagATGGGTGGTATTGATGAGGCTGCCCTTGATCGACTTTCTCTTGTCACTCAGATGACAAAGCACATTCGTGTTAGAGCATCTGGAGGAAGGAGTTCTACAT
upper sequence: Vv10s0003g00370.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT5G46070.1 (Arabidopsis thaliana), 3'ss of exon 3
gttggtacatcatatgctcaagttgtggacaaggattggttgtgggatttagtagacagtttctttttattgaaatttgatctattttgtgttttctcctcacaatcagcatgcattgtgtatcatgtccataaattctgttgtatgggttcttgattcttctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
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--------------------------------------------------------------------------gtttgaaaaattttcagtttgaaacttaatttaagctttttgtg-atattattttcacac------ttgtgttgactgatg-tttttttgttggtatgtgt-------------cagATGGGAGGCATTGACGAAGCTTCACTGGATCGCCTTTCTCTTGTCACTCAAATGACAAAGCATATCCGCGTAAAAGCTTCTGGAGGGACGAGCTCACGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgttgtatgggttcttgattcttctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
tcttgat putative branch site (score: 4)
ttcttctgcctattta CT-rich tract
tattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttggtacatcatatgctcaagttgtggacaaggattggttgtgggatttagtagacagtttctttttattgaaatttgatctattttgtgttttctcctcacaatcagcatgcattgtgtatcatgtccataaattctgttgtatgggttcttgattcttctgcctatttacgttcttccttccattcagATGGGTGGTATTGACGAAACCGCACTTGACCGCCTCTCTCTTGTCACCCAAATGACTAAGCATATACGTGTTAGAGCTTCTGGGGGGAGGACTACACCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA