Sequence
atgc intronic sequence ATGC exonic sequencegtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 4
gtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
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gtgagatacacgttgataatt--------aatgat----gtgatttg--tgcagtagaagagtattttatcat----acccaaaacatcattttgactctaatgcagATATTTCATGACTTGTGCTTGTGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTGCATGGAAAGATG
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G35640.1 (Glycine max), 3'ss of exon 4
gtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
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gtgagatacacattgataattaatgatg---tgatttgtgcagtagaagagtaatttatcagatataatttatcttact---caacatcattttgactctaatgcagATATTTCATGACTTGTGCATGCGTTGATTATTGGGGAGCTGTCCTTCCTTGTCTTTCTGTTTTGAAAGGCTTCTCCTTGATTCCCCTACATGGGAAGATG
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G71370.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
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-----------------------gtaagttttg-tcacaacgtacttatca-aattaagcatc------cttttacagatagtctaactagtatctc--ttctgcagATTCTTCATGACATGTGCTTGTGTTGATTACTGGGGACTCGTACTTTCAAAAATTCCTACCCTCAAGTCCATTTCCTTCTTTTCCACCCATGGGAAGATG
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT1G71280.1 (Arabidopsis thaliana), 3'ss of exon 4
gtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
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-----------------------gtaagttttg-tcacaacgtacttatca-aattaagcatc------cttttacagatagtctaactagtatctc--ttctgcagATTCTTCATGACATGTGCTTGTGTTGATTACTGGGGACTCGTAATTTCAAAAATTCCTAGCCTCAAGTCCATTTCCTTCTTTCCCACCCATGGGAAGATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
ttctcac putative branch site (score: 2)
ttttctcacttttgc CT-rich tract
tcaattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttttacattgttaatttcccaagcaatggtctctgtgaattgattacagttaggtgtggatgaaccatctcaatttgcaaaatggttttctcacttttgcagCTACTTCATGACTTGTGCTTGTGTTGATTACTGGGGAGTCATTCTTCCACGTCTCTCTGTTCTGAAGGGTTTCTCTTTGATCCCTCTTCATGGGAAAATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG