Sequence
atgc intronic sequence ATGC exonic sequencegtttaatttatgacatgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os03g36780.1 (Oryza sativa), 3'ss of exon 12
gtttaatttatgacatgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gtttgttttgttatctg----ttgtatttttctaaa----------tctatcatttgtgaactttaaagtgtaaattttgatcg--cagACAATTATTTCTGGGATGGGTGAGCTGCATTTGGATATCTATGTTGAACGCATCAGGAGAGAGTACAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G056393_T02 (Zea mays), 3'ss of exon 12
gtttaatttatgacatgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gtttg--tcacatcatccatttca-atttcaatttgtatttgtatttttgtgaagttc--ttaatacataaaa---tttgctagt--agACAATTATTTCCGGGATGGGTGAGCTGCATCTGGATATATACGTTGAACGTATTAAGAGAGAGTACAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA11G16460.1 (Glycine max), 3'ss of exon 12
gtttaatttatgacatgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gttatcttta----attctttgatcattctctttttaagtacaa-tattattgttcgtatgt-tgatattagtaaacttctgtggttagACAATCATTTCTGGAATGGGGGAACTGCATTTAGATATCTATGTTGAACGCATTAGGAGAGAGTATAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA01G14800.1 (Glycine max), 3'ss of exon 7
gtttaatttatgacatgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gttatcttta----atttttttatcattctcttttaagtaaaacatt--attgtttgtatcttgattagtaa----tttctgtggttagACAATCATTTCTGGAATGGGGGAACTGCATTTAGATATCTATGTTGAACGCATTAGGAGAGAGTATAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT1G45332.1 (Arabidopsis thaliana), 3'ss of exon 12
gtttaatttatga---catgcatttcaca-cattccttagaggaagaagttttatcatgcctaaccatga-----catcaaa--atgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gtatcatctaaaaactcttttgcttctcagcaccactctcttaattcaccccattagtatttaacattgaggattcttccatttatccgtaatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGGAGAGAATATAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G45030.1 (Arabidopsis thaliana), 3'ss of exon 12
gtttaatttatga---catgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgaca-----tcaaa--atgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gtatcatctaaaaactcttttgcttctcagcacctctctcttaattcaccccatagtatttaacattgatgattcttccatttatccttcatgggacagACGATTATTTCTGGTATGGGGGAATTGCATTTGGACATCTATGTTGAACGCATGCGAAGAGAATATAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: PP1S100_33V6.1 (Physcomitrella patens), 3'ss of exon 10
-----------gtttaatttatgacatgcatttcacacattccttagaggaagaa-gttttatcatgcctaaccat-gacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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actgtgcagttggttgattt--tactttaattttgtagaagttgtgatagaagttcagcggatcgatctgaagcgcagggacgggggttgggttttgtgcagACCATTATTTCGGGAATGGGAGAGCTGCATCTAGATATCTATGTGGAACGCATTCGTCGTGAATACAAG
upper sequence: Vv15s0021g02450.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: PP1S20_94V6.1 (Physcomitrella patens), 3'ss of exon 10
-------------------------------------------------------------gtttaattt---atgacatgcatttcacacattcct---tagag-gaagaagttttatcatgcctaaccatgacatcaaaat----gcttt--cttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
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gtaaatcatttcacagcttgtttttacttgttccttgcttttgtggtacatttattggtattttcaatctccagtgacctaactttattgcaattctattcaaagtgaatggagttcagaggatttatctgaggggccgggactggggcttgagtttctgcagACAATTATTTCGGGGATGGGAGAGCTGCATCTTGACATATATGTTGAACGCATTCGTCGTGAATACAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
gcctaac putative branch site (score: 2)
tgctttctt putative PPT
aagttttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttaatttatgacatgcatttcacacattccttagaggaagaagttttatcatgcctaaccatgacatcaaaatgctttcttgtgcagACAATTATTTCTGGAATGGGAGAGCTGCATTTGGACATTTACGTTGAACGCATTCGGAGGGAGTATAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC