Sequence
atgc intronic sequence ATGC exonic sequencegtactcttttgatctccctcacacaaggggtctgccgttttctttggtgtaccttatggaggttttgataaaattgtttgagaaataccgagcatcaccattttggggtgctttaaccaatttccctctcacaatcaatttaacatgctgtggcagGTGATTATGGTCGCAGGGGATCACAGGGTTGGCATATTTGCCAAGGAACGAATTAGCGCAGGAGAGGAACTCTTTTATGATTACCGTTATGAGCCAGATA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA01G39490.1 (Glycine max), 3'ss of exon 18
gtactcttttgatctccctcacacaaggggtctgccgttttctttggtgtaccttatggaggttttgataaaattgtttgagaaataccgagcatcaccattttggggtgctttaaccaatttccctctcacaatcaatttaacatgctgtggcagGTGATTATGGTCGCAGGGGATCACAGGGTTGGCATATTTGCCAAGGAACGAATTAGCGCAGGAGAGGAACTCTTTTATGATTACCGTTATGAGCCAGATA
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---------------------------------gtatttatcagttctgacctttttaaaatatgttat----ttattggagctctatttcacattgc-att---gagtatcctaggttttcagtgtcattcagtctctatg-cttaaactggcagGTTATTATGGTTGCCGGAGATCATAGGGTAGGCATTTTTGCCAAGGAACGGATTTGTGCCGGGGAGGAGCTGTTCTATGATTATCGTTATGAGCCAGATA
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: GLYMA11G05760.1 (Glycine max), 3'ss of exon 18
gtactcttttgatctccctcacacaaggggtctg-ccgttttctttggtgtaccttat-ggaggttttgataaaattgt-ttgagaaataccgagcatcaccattttggggtgctttaaccaatttccctctcacaatcaatttaacatgctgtggcagGTGATTATGGTCGCAGGGGATCACAGGGTTGGCATATTTGCCAAGGAACGAATTAGCGCAGGAGAGGAACTCTTTTATGATTACCGTTATGAGCCAGATA
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------------------gtatttatgagttctgacctttttcaaatgtgttatttattggagctctatttcacattgcattgagtattcctaggt-------tttcagcgtcattca--caatctct-------aaatgcttaaac------tggcagGTTATTATGGTTGCTGGAGATCATAGGGTAGGCATTTTTGCCAAGGAACGGATTTGTGCCGGGGAGGAGCTGTTCTATGATTATCGTTATGAGCCAGATA
upper sequence: Vv07s0031g00320.t01 (Vitis vinifera), 3'ss of exon 14
lower sequence: EFJ04316 (Selaginella moellendorffii), 3'ss of exon 14
gtactcttttgatctccctcacacaaggggtctgccgttttctttggtgtaccttatggaggttttgataaaattgtttgagaaataccgagcatcaccattttggggtgctttaaccaatttccctctcacaatcaatttaacatgctgtggcagGTGATTATGGTCGCAGGGGATCACAGGGTTGGCATATTTGCCAAGGAACGAATTAGCGCAGGAGAGGAACTCTTTTATGATTACCGTTATGAGCCAGATA
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------------------------------------------------------------------------------------------------------gtgaggtgttctccataaagctgct------ggaaactcaacatgaatgtgtagGTGATAATGGTTGCTGGGGATCACAGAGTTGGCATATTTGCAAAGGAACGTATATCAGCCGGTGAGGAACTGTTCTACGACTACAGGTACGAAGCCGATA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttggggtgctttaaccaatttccctctcacaatcaatttaacatgctgtggcagGTGATTATGGTCGCAGGGGATCACAGGGTTGGCATATTTGCCAAGGAACGAATTAGCGCAGGAGAGGAACTCTTTTATGATTACCGTTATGAGCCAGATA
atttaac putative branch site (score: 3)
aatcaatttaacat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactcttttgatctccctcacacaaggggtctgccgttttctttggtgtaccttatggaggttttgataaaattgtttgagaaataccgagcatcaccattttggggtgctttaaccaatttccctctcacaatcaatttaacatgctgtggcagGTGATTATGGTCGCAGGGGATCACAGGGTTGGCATATTTGCCAAGGAACGAATTAGCGCAGGAGAGGAACTCTTTTATGATTACCGTTATGAGCCAGATA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA