Sequence
atgc intronic sequence ATGC exonic sequence...ctggatcagtaatggaaaatttaggatctaatgcttaatggttttccatgattatgtgccaatgtctatggtgtttgatctctttcttgtttcaatttagGACGTCATATTGATGACACATGGGTGGCGTACATTGGTAATGATTTTCGGAGGATGTTAAGGTGGGAGAAGATTACTTCAGGCATTCCAAGTGGCCGGTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g00610.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G23670.1 (Glycine max), 3'ss of exon 1
ctggatcagtaatggaaaatttaggatcta---atgcttaatggttttccatgattatgtgccaatgtctatggtgtttgatctct-ttcttgtttcaatttagGACGTCATATTGATGACACATGGGTGGCGTACATTGGTAATGATTTTCGGAGGATGTTAAGGTGGGAGAAGATTACTTCAGGCATTCCAAGTGGCCGGTT
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----ttgaatactgtttatttttccatttataggaagtttctatgcctcttgactaaagtgttaccttgtaatatctttgttccttgttcttattgctgtttagGACGACATCTTGATGACACATGGGTGGCATACATTGGCAATGATTTCCGAAGAATGTTGAAATGGCAGACAGTCCATTCAGGCATTCCAAGTGGGAGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccatgattatgtgccaatgtctatggtgtttgatctctttcttgtttcaatttagGACGTCATATTGATGACACATGGGTGGCGTACATTGGTAATGATTTTCGGAGGATGTTAAGGTGGGAGAAGATTACTTCAGGCATTCCAAGTGGCCGGTT
gtttgat putative branch site (score: 5)
tctctttcttgtttc CT-rich tract
tttcaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctggatcagtaatggaaaatttaggatctaatgcttaatggttttccatgattatgtgccaatgtctatggtgtttgatctctttcttgtttcaatttagGACGTCATATTGATGACACATGGGTGGCGTACATTGGTAATGATTTTCGGAGGATGTTAAGGTGGGAGAAGATTACTTCAGGCATTCCAAGTGGCCGGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - -ggaaaat
- - - - - - - - - - - - - -ctaatgc
- - - - - - - - - - - - - - - - - - - - - - -ccatgat
- - - - - - - - - - - - - - - - - - - - - - - - - - tatgtgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - -caatgtc