Sequence
atgc intronic sequence ATGC exonic sequence...attatctatatatagtatctatacatactaggataaaaatcacgatctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G13780.1 (Glycine max), 3'ss of exon 3
------attatctatatatagtatctatacatactaggataaaaatcacgatctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
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tgttgaactgactg-agattgtaataatccatatccaattgccaatctgcatttttccaa--gccagattcacaacctgttg--tgttgacatt-gcttcatgcagGAAAGAGGAGAAAATGTACCACCGGAAGACTCTTTTGAAGTGGCTCGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G30630.1 (Glycine max), 3'ss of exon 3
-------------------------------------------------------------------------------------attatctatat--atagtatctatacatactaggataaaaatc-acgatctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
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gtaggaaatccttgtggtataaatttaaaagttattgtgctcttcttgttaatgttgaaggatctcacaaactaccatttacatagctagtgaaatcaattgtaataatccatatccaattgtcaatctacattttgctaaa--gtcagattcatgaactgtcttgtgttgacatc-gcttggtgcagGAAAGAGGAGAGAATGTACCACCAGAAGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 3
---attatctatatatagtatctatacatactaggataaaaatcacgatctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
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tgaactgactg-agattgcattaatccatatccaattgtcagtctgcattt-tgctaaagtcagattcatgaactgtcttgtgttgacatc-gcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
upper sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 3
-attatctatatatagtatctatacatactaggataaaaatcacgatctgtga--aatg-attaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
| | || || | || ||| || | || | || |||| |||| ||| ||| ||| || ||| ||||||||||||| ||| || | || || ||||| || || || ||||| || ||||||||||||||||| ||||| || | |||||| ||||| |||
tttgttttagatgttgtgctcatatgcttagagagggtgtttactggtttagattaatgtattaacttcatgtaacttctcgtttcaatgtttac----tgtagGAAAGAGGTGAGAATATACCACCAGAAGATTCATTCGATGTAGCCCGTAAAGTGAAGGAAATGTACTGCTACACTTGTTCTGACATCGTAAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
ttttgat putative branch site (score: 4)
tgaattttgatattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attatctatatatagtatctatacatactaggataaaaatcacgatctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - gaaatga