Sequence
atgc intronic sequence ATGC exonic sequence...atgctaaagaatgccaatgctttcatttgttggttgattggctcatgttatatattattataagctatcaagaaattaaaaaaggtaacactttgtgcagGTGGGGGTTATCATCATTCCAAGAAAATACATAATGGGGAAGGTCGAGGAGAGAGCCCTCAAAACATTGATCATACTAATATCTGCATCTCTGTGTATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA16G23420.1 (Glycine max), 3'ss of exon 2
atgctaaagaatgccaatgctttcatttgttggttg--attggct--catgttatatattat---tataagctatcaagaaattaaaaaaggtaacactttgtgcagGTGGGGGTTATCATCATTCCAAGAAAATACATAATGGGGAAGGTCGAGGAGAGAGCCCTCAAAACATTGATCATACTAATATCTGCATCTCTGTGTATTT
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-----aatttctgctgctattttttttcagtttttactaccaacttccccgttataatttatacctttttcttgtttacaagttacta--gcttaaactttgtgcagGTGGGTGTAATCATCATACCTAGAAAGCATATCATGGGGCAGGCAGATGAAAGAGCCTTCAAAACATTGGTTATTCTGATATCTGCATCATTGTGTATTA
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA02G05220.1 (Glycine max), 3'ss of exon 3
--atgctaaagaatgccaatgctttcatttgttggttgattggctcatgttatatattattataagctatcaagaaattaaaaaaggtaacactttgtgcagGTGGGGGTTATCATCATTCCAAGAAAATACATAATGGGGAAGGTCGAGGAGAGAGCCCTCAAAACATTGATCATACTAATATCTGCATCTCTGTGTATTT
||||| | | | ||| | || || | | || || | | | | | || ||| | | | | |||||||||||||||| || |||||||| || ||||| | || |||||| ||| || || |||||| ||||||||||| | || || ||||||||||| ||||||||
tgctgctatttttttttcttttctgtttttactaccaactttcctattataatttacaccttttgattgtttacaagttacta--gcttaaactttgtgcagGTGGGTGTAATCATCATACCTAGAAAGCATATTATGGGGCAGGCAGATGAAAGAGCCTTCAAAACATTGGTTATTCTGATATCTGCATCATTGTGTATTA
upper sequence: Vv04s0023g03680.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA11G08310.1 (Glycine max), 3'ss of exon 3
----------------------------------------atgctaaagaatgccaatgctttcatttgtt-ggttgattggctcatgttatat--attattataagctatcaagaaattaaa--aaaggtaacactttgtgcagGTGGGGGTTATCATCATTCCAAGAAAATACATAATGGGGAAGGTCGAGGAGAGAGCCCTCAAAACATTGATCATACTAATATCTGCATCTCTGTGTATTT
|| ||| || | |||| | | ||| || || | || | || || | || || |||| | ||||||||| ||||| || || |||||||| |||||||| || || |||||| |||| || || |||||| |||||| ||| | || || ||||||||||| | |||||||
gtaagtttgaagatacatgctacacttattccttacatttgatcttgcaaatagcattacttttgatgataaggtagaatgttgtaggtaaaatttatgcctctatttcatttctgttttaagtcaccaactacactttgtacagGTAGGTGTGATCATCATACCAAGAAAGTATATCATGGGGCAGGTAGATGAAAGAGCCTACAAAACGTTGGTTATTCTGATATCTGCATCATTATGTATTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttatatattattataagctatcaagaaattaaaaaaggtaacactttgtgcagGTGGGGGTTATCATCATTCCAAGAAAATACATAATGGGGAAGGTCGAGGAGAGAGCCCTCAAAACATTGATCATACTAATATCTGCATCTCTGTGTATTT
aggtaac putative branch site (score: 3)
tatattattataagct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgctaaagaatgccaatgctttcatttgttggttgattggctcatgttatatattattataagctatcaagaaattaaaaaaggtaacactttgtgcagGTGGGGGTTATCATCATTCCAAGAAAATACATAATGGGGAAGGTCGAGGAGAGAGCCCTCAAAACATTGATCATACTAATATCTGCATCTCTGTGTATTT
- - taaagaa
- - - - - - -ccaatgc
- - - - - - - - - - - - - -tgttggt
- - - - - - - - - - - - - - - - - tgattgg
- - - - - - - - - - - - - - - - - - - - -ctcatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aagaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - taaaaaa