Sequence
atgc intronic sequence ATGC exonic sequencegtaacaaaattcgaagatcttctgagaattttgacttggattatgagtcatttgtttattgtgtggtggatatgcgtttgctttggcttgtggttctgattggcgaaaaattgtgcagTGAAGGATGCAACCATGTTGGTGTTTGTGACCCCACACCAATTCATGGAGGGTATATGCAAGAGGCTTGTTGGGAAGATAAGGGGAGATGCGGAGGCTAT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G07410.1 (Glycine max), 3'ss of exon 3
----------------------------------------gtaacaaaattcgaag-atcttctgagaattttgacttggattatgagtcatttgtttattgtgtggtggatatgcgttt------gctttg---gcttgtggttctgattggcgaaaaattgtgcagTGAAGGATGCAACCATGTTGGTGTTTGTGACCCCACACCAATTCATGGAGGGTATATGCAAGAGGCTTGTTGGGAAGATAAGGGGAGATGCGGAGGCTAT
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gtatttaatttagttttatttatttacttatttactttgatttagaaggtaaaaagtaaaattcacaaattcataccaaaagaacca--catttttaaataaagaaaaggatgcaaaactccacaagtgttaaatgttcactgtttacttttggggtaaattatgcagTGAAGGATTCCAACATGTTAGTGTTTGTGACTCCACATCAATTTATGGAAGGAATATGCAAAAGGCTTGTTGGGAAAATAAGGGAAGATGCTGAAGCTAT
upper sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA05G24070.1 (Glycine max), 3'ss of exon 4
------------------------------------------------gtaacaaaattcgaagatcttctgagaattttgacttggattatgagtcatttgtttattgtgtgg-tggatatgcgtttgctttg-gcttgtggttctgattggcgaaaaattgtgcagTGAAGGATGCAACCATGTTGGTGTTTGTGACCCCACACCAATTCATGGAGGGTATATGCAAGAGGCTTGTTGGGAAGATAAGGGGAGATGCGGAGGCTAT
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gtatttgatttagttttttatttatttattctgtgatttataaggttaaaaataaaattcacaaattcacaccaaaag--aaccaaatttttaaacaaagaaaaggatgcaaaactctacaagtgttaaaaacatgttcactgtttacttttggggtacattatgcagTGAAGGATTCCAACATGTTAGTGTTTGTGACTCCACATCAATTTATGGAAGGAATATGCAAAAGGCTT--------------------------------
upper sequence: Vv14s0219g00280.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA19G23190.1 (Glycine max), 3'ss of exon 4
gtaacaaaattcgaagatcttctgagaattttgacttggattatgagtcatttg--ttta-ttgtgtggtggatatgcgtttgctttggcttgtggttctgattggcgaaaaattgtgcagTGAAGGATGCAACCATGTTGGTGTTTGTGACCCCACACCAATTCATGGAGGGTATATGCAAGAGGCTTGTTGGGAAGATAAGGGGAGATGCGGAGGCTAT
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-----------------------------------gtatattac-agttgttcaattttacttttaaggttgtcttgttattaacttgtcttctg-ttctgaatggttga---ttatgcagTTAAGGATGCCAACATGCTAGTATTTGTAACTCCGCATCAATTCATGGAAGGAATATGCAAGAGGCTTGCAGGGAAAATAAGGTCAGATACAGAGGGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtggatatgcgtttgctttggcttgtggttctgattggcgaaaaattgtgcagTGAAGGATGCAACCATGTTGGTGTTTGTGACCCCACACCAATTCATGGAGGGTATATGCAAGAGGCTTGTTGGGAAGATAAGGGGAGATGCGGAGGCTAT
ttctgat putative branch site (score: 3)
aaaaattgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacaaaattcgaagatcttctgagaattttgacttggattatgagtcatttgtttattgtgtggtggatatgcgtttgctttggcttgtggttctgattggcgaaaaattgtgcagTGAAGGATGCAACCATGTTGGTGTTTGTGACCCCACACCAATTCATGGAGGGTATATGCAAGAGGCTTGTTGGGAAGATAAGGGGAGATGCGGAGGCTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG