Sequence
atgc intronic sequence ATGC exonic sequencegtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA04G01230.1 (Glycine max), 3'ss of exon 2
gtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaatt-gggtggagtccaaccatttacattttctgagttcttaaccttat----aattctctgttc-ctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
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-----------------------------gtatttccgtgcaaaaataggaaaatcactcttcatgttgtgatcttttgtgtataattttttatttatgtatctaattataaattttttgtcctcaagGATTTTGAATTCAATGAACTAGAGGAAGTTCTAAAATACTACCCACAAGGGCATCATGGGATTGACAAGGATGGCCGGCCTGTTTACATTGAAAAGTTGG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G12270.1 (Glycine max), 3'ss of exon 2
gtatcatcttg-ggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
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gtattttcctgtggaaaaagaaaaaaacaat--gttca---caattata---------cttttctatgtaacatttttatttatgtggtaggctaaccaaaatttcttttgttttttgttaagGATTTTGAATTCAAGGAGAGAGATGAAGTTCAAAAATACTACCCGCAAGGGCATCACGGAGTTGATAAGGAAGGGCGACCTGTTTACATAGAAAAGTTGG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA06G01270.1 (Glycine max), 3'ss of exon 3
gtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
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gtatttccgtgcaaaaataggaa----aatcactcttcatggtgtg-------atcttttttgtgtataacttttttatctatatatc---------taactataaattttttatcctcaagGATTTTGAATTCAATGAACTAGAGGAAGTTCTAAAATACTACCCACAAGGGCATCATGGGATTGACAAGGATGGCCGACCTGTTTACATTGAAAAGTTGG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT4G36490.1 (Arabidopsis thaliana), 3'ss of exon 2
gtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaac--catttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
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--------------------gtatgattattattctagaggaacgttttgcagatttgaaaatggtctctttgagtagtactaacattctct---tctttggttttgtatattttta-----agGAGTTTGATTTCAAGGAAATTGATGAAGTGTTGAAATACTACCCTCAAGGACACCATGGAGTTGACAAGGAAGGACGACCTGTGTACATTGAGAGGCTTG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT2G18180.1 (Arabidopsis thaliana), 3'ss of exon 3
gtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
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--------------------------gtgtgaattcatagagtttctttatgaat-gcaagaaggtgcattgtggttgaaaacaatgttcttactcttttttttttctttgtat-ctcttagGATTTTGAATTTAAGGAAATTGATGAAGTGTTGAAATACTACCCTCAAGGACACCATGGAGTCGACAAGGAAGGAAGACCGGTGTACATTGAGAGGCTAG
upper sequence: Vv03s0038g04480.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ28804 (Selaginella moellendorffii), 3'ss of exon 2
gtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
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-----------------------------------------------gtcggtgccat--ccatttaaaagcttacggctggttctctttaatgttttgttcttcttctttggactgtctagGATTTCCATTTCAAAGAGCTGGAGGAAGTGAGGAAATACTATCCACAAGGCCACCATGGAGTGGACAAAGAAGGAAGGCCTGTATATATTGAGAGGATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
tcttaac putative branch site (score: 2)
ttctctgttcct putative PPT
ttaaccttataatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcatcttgggaaaaagtcaattatagttggtttagatcacttgtatagaaaccacaattgggtggagtccaaccatttacattttctgagttcttaaccttataattctctgttcctagGATTTTGAATTCAAGGAAATTGATGATGTCCTTGAATACTACCCACAAGGACATCATGGAGTTGATAAAGATGGGCGGCCTGTTTATATTGAGAGACTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG