Sequence
atgc intronic sequence ATGC exonic sequencegtgaaaattttcgtagtctcacatccaaattcacttctgggtattgtcttcttcgcttgcttttgacacaatttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G01560.1 (Glycine max), 3'ss of exon 4
gtgaaaattttcgtagtctcacatccaaattcac---ttctgggtattgtc------ttcttcgcttgctt--ttgacaca--atttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
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gtgaactatttctaaaccctttaattaattataaggataatgaagattgttgtgcatctcataatatgcctaattaatatgttatctgatggtgtctattagATGATGTCAAGCAGACCAAGATCAGATGTTTACATCAACCTCCCAGCTTTGCAGAAGCTTGACACAATGCTCATA
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA07G07980.1 (Glycine max), 3'ss of exon 4
gtgaaaattttcgtagtc--tcacatccaaattcacttctgggtattgt-cttcttcgcttgcttttgacaca--atttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
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gtgaattatttctaaaccctttaattataaggataatgaagatttttgtgcatctcataatgtgtctaatatgttatctagtggtgtctcttagATGATGACAAGCAAACCAAGATCAGATATTTACATCAACCTCCCAGCTTTGCAGAAGCTTGACACAATGCTCATA
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA14G12840.1 (Glycine max), 3'ss of exon 2
gtgaaaattttcgtagtc--tcacatccaaattcacttctgggtattgt-cttcttcgcttgcttttgacaca--atttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
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gtgaattatttctaaaccctttaattataaggataatgaagatttttgtgcatctcataatgtgtctaatatgttatctagtggtgtctcttagATGATGACAAGTAAGCCAAGATCAGATATTTACATCAACCTCCCAGCTTTGCAGAAGCTTGACACAATGCTCATA
upper sequence: Vv15s0046g02530.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G00460.1 (Arabidopsis thaliana), 3'ss of exon 4
--gtgaaaattttcgta-gtctcacatccaaattcacttctgggtattgtcttcttcgcttgcttttgacacaatttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
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gtaagtaacttgtcaaatattttgtatgaaaactgaaagacaaaaattg--------gaaaaatgaaaactttgttggtgagtt--gttcagGTGATGGAGAGTAGACCAAGAGCAGATATCTATATCAACTTGCCTGCATTGAGAAAGCTAGATTCAATGCTTATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgggtattgtcttcttcgcttgcttttgacacaatttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
ttttgac putative branch site (score: 3)
ttttgttc putative PPT
acaatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaaaattttcgtagtctcacatccaaattcacttctgggtattgtcttcttcgcttgcttttgacacaatttatcggttttgttcagGTGATGGCAAGTAGACCCAGATCAGATATCCATATCAACCTTCCAGCTCTGCAAAAGCTCGACACAATGCTCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC