Sequence
atgc intronic sequence ATGC exonic sequencegttatttttctactactcttatcttttcctttacatttctatgtgttactttaagcacgggggaaacttgtttaatgcagGACGTTGTTGACCCAGTCACAGACGAGATGCTTGCAAAGTTTGTGGTTGATAGTCATTTCAAGTCACAACCCAAGGGCACTAATGTAGAGGATAAGTCCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os11g29380.1 (Oryza sativa), 3'ss of exon 13
gttatttttctactactcttatcttttcctttacatttcta--tgtgtta-ctttaagcacgggggaaacttgttt--aatgcagGACGTTGTTGACCCAGTCACAGACGAGATGCTTGCAAAGTTTGTGGTTGATAGTCATTTCAAGTCACAACCCAAGGGCACTAATGTAGAGGATAAGTCCT
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----gtttggagctgattttgctgtgtaatatatttttgcagtcctggtatctatctgtactgattttttctggtgcaaatgcagGACATTGTTGACCCATTTACAGATGAAATGCTTGCAAGGTTTGTTGTAGATAGTCATGCAAGATCTCAACCCAAGGGTGCTAACCTTGAAGATAGGGTTC
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA17G03920.1 (Glycine max), 3'ss of exon 12
gttatttttctactactcttatcttttcctttacatttctatgtgt-tactttaagcacgggggaaacttgtttaatgcagGACGTTGTTGACCCAGTCACAGACGAGATGCTTGCAAAGTTTGTGGTTGATAGTCATTTCAAGTCACAACCCAAGGGCACTAATGTAGAGGATAAGTCCT
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gttatatttatatt--cattgcttctttgtttacctcttcatttgaatatatttattgagggagttctttattt--tacagGATGTTGTTGATCCAGTCACTGATGAAATGCTTGCAACGTTTGTCGTTGACAGTCACTTCAAGTCACAACCCAAGGGTGCCAAGCAAGATGATAAGTCCT
upper sequence: Vv01s0150g00390.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA07G36680.1 (Glycine max), 3'ss of exon 12
gttatttttctactactcttatcttttcctttacatttctatgtgttactttaagcacgggggaaacttgtttaatgcagGACGTTGTTGACCCAGTCACAGACGAGATGCTTGCAAAGTTTGTGGTTGATAGTCATTTCAAGTCACAACCCAAGGGCACTAATGTAGAGGATAAGTCCT
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gttatatttaaatt--cattgcttctttgtttacctcttcatttgaatatttat---tgagggagttctttattttacagGATGTTGTTGATCCGGTCACTGATGAAATGCTTGCAACGTTTGTCGTTGACAGTCACTTCAAGTCACAACCCAAGGGTGCTAATCAAGATGATAAGTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttcctttacatttctatgtgttactttaagcacgggggaaacttgtttaatgcagGACGTTGTTGACCCAGTCACAGACGAGATGCTTGCAAAGTTTGTGGTTGATAGTCATTTCAAGTCACAACCCAAGGGCACTAATGTAGAGGATAAGTCCT
gtttaat putative branch site (score: 4)
cttgttt CT-rich tract
ttactttaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttatttttctactactcttatcttttcctttacatttctatgtgttactttaagcacgggggaaacttgtttaatgcagGACGTTGTTGACCCAGTCACAGACGAGATGCTTGCAAAGTTTGTGGTTGATAGTCATTTCAAGTCACAACCCAAGGGCACTAATGTAGAGGATAAGTCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT