Sequence
atgc intronic sequence ATGC exonic sequence...gttctgtaagctatctttatactcattgtactttgttattttgttttacgtgtaacaatgcatcttgaagatcaataacccggtcctggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0032g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G06430.1 (Glycine max), 3'ss of exon 1
gttctgtaagctatctttatactcattgtactttgttattttgttttacgtgtaacaatg---catcttgaagatcaataacccggtcct-ggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
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---gtagatgttgtcttttaccataattt-ttttcttgtcaggagttaagtacaccattagttcaacacttaaccttttatttttttctttgatattgaatcagGTGTGTTCTTCTTGGCGTGAGTTGCGGTGCAAATATTGCAGACCATGTGGCTCGAAAAGCTGTAGAAGCAGGCAAACTTCTGGACCCTGTCAAGGTGGTG
upper sequence: Vv08s0032g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G22760.1 (Glycine max), 3'ss of exon 1
gttctgtaagctatc-tttatactcatt-gtactttgttattttgttttacgtgtaacaatgcatcttgaagatcaa---taacccggtcctggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
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---agatgagctgttgtctttaaccataagtattttcttgtcaggagttaagtacacc--tttagttcaaagcttaacctttttttttctttgatattgaatcagGTGTGTTCTTCTTGGCGTGAGTTGCGGTGCAAATATTGCAGACTATGTGGCTCGAAAAGCTGTAGAAACAGGCACACTTTTGGACCCTGTCAAGGTAGTG
upper sequence: Vv08s0032g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA16G06780.1 (Glycine max), 3'ss of exon 1
gttctgt-aagctatcttt-atactcattgtactttgttatt--ttgttttacgtgtaacaatgcatcttgaagatcaataacccggtcctggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
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----tgtcatgcttcctttgattccagttgtaagatattcctcatggagtaatgtacttccttgttcagtgcttaaccattttatttccttaatgttgaaacagATGTGTTCTTCTTGGAGCGAGTTGTGGTGCCAATATTGCAGACTATGTGGCTCGAAAAGCTGTGGAAGGAGGCAAACTTCTGGAACCTGTCAAGGTGGTA
upper sequence: Vv08s0032g00040.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G24390.1 (Glycine max), 3'ss of exon 1
gttctgtaagctatctttatactcattgtactttgttattttgttttacgtgtaacaatgcatcttgaagatcaataacccggt---cctggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
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cttcttcctttcatgcttcctttgattccagtt-gtaagatagtcct-catg-gactttcttgttcagtgcttaaccattttatttctttaatattgaaacagATGTGTTCTTCTTGGAGCGAGTTGTGGTGCCAATATTGCAGACTACGTGGCACGAAAAGCTGTGGAAGGAGGCAAACTTCTGGACCCTGTCAAGGTGGTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttacgtgtaacaatgcatcttgaagatcaataacccggtcctggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
caataac putative branch site (score: 2)
atcaataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttctgtaagctatctttatactcattgtactttgttattttgttttacgtgtaacaatgcatcttgaagatcaataacccggtcctggtattgaaacagGTGTGTTCTCCTTGGGGTGAGCTATGGTGAAAATATTGCAGACTATGTGGCTCGGAGGTTTGTAGAGGCAGGCAAGCTTTTAGACCCTGTTAAGGTGGTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aataacc