Sequence
atgc intronic sequence ATGC exonic sequencegtacttatttgttttgatattataaatgtactgagtcagaatgttagaagtagtggctatttttcttttcatttaatcaaacaaggagtcacaaattgatcccaagattgtcttataagttgataccttagtttgttgtatttttttcctttttcttattattgatagctttatactctttccagGTTTATACAGATCTAGAAGTAGCTTTTGTTGTTTCAGAAGAGGAAGCCATCTTTAAGGCATTGTCCAAAACCGTGGAATTACTGGAAGGGAATACTGCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv12s0035g02060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G28490.1 (Glycine max), 3'ss of exon 9
gtacttatttgttttgatattataaatgtactgagtcagaatgttagaagtagtggctatttttcttttcatttaatcaaacaaggagtcacaaattgatc--ccaagattgtcttataagttgataccttagtttgttgtatttttttcctttttcttattattgatagctttatactctttccagGTTTATACAGATCTAGAAGTAGCTTTTGTTGTTTCAGAAGAGGAAGCCATCTTTAAGGCATTGTCCAAAACCGTGGAATTACTGGAAGGGAATACTGCAC
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-------------------------------------------------------------------gtaatacaccctaatccctgttaacttcttggcttacttagtccttatggtagacttgtgttttggcttgatattgacaatttcttattgatagcactgaca----tgaatgttttacagGTTTATCCGGATTTAGAAGTAGCTTTTGTCATTTCAGAAGAAGAATCCCTCTTTAACGCCTTGTCCAAAACTGTTGAATTACTAGAAGACAATACTGCAT
upper sequence: Vv12s0035g02060.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G00210.1 (Glycine max), 3'ss of exon 9
gtacttatttgttttgatattataaatgtactgagtcagaatgttagaagtagtggctatttttcttttcatttaatcaaacaaggagtcacaaattgatcccaagattgtcttataagt-tgataccttagtttgttgtatttttttcctttttcttattattgatagctttatactctttccagGTTTATACAGATCTAGAAGTAGCTTTTGTTGTTTCAGAAGAGGAAGCCATCTTTAAGGCATTGTCCAAAACCGTGGAATTACTGGAAGGGAATACTGCAC
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------------------------------------------------------------------------gtaat--attccctaatccctgttaacttcttggcttacttagtccatatggtatttttgcttgatattgacaatttcttattgatagcaccgaca----tgcatgttttacagGTTTATCCGGATTTAGAAGTAGCTTTTGTCATTTCGGAAGAAGAATCCCTCTTGAACGCCTTGTCCAAAACTGTTGAATTACTAGAAGGCAATACTGCAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttgttgtatttttttcctttttcttattattgatagctttatactctttccagGTTTATACAGATCTAGAAGTAGCTTTTGTTGTTTCAGAAGAGGAAGCCATCTTTAAGGCATTGTCCAAAACCGTGGAATTACTGGAAGGGAATACTGCAC
tattgat putative branch site (score: 3)
ctttatactctttcc putative PPT
tatttttttccttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtacttatttgttttgatattataaatgtactgagtcagaatgttagaagtagtggctatttttcttttcatttaatcaaacaaggagtcacaaattgatcccaagattgtcttataagttgataccttagtttgttgtatttttttcctttttcttattattgatagctttatactctttccagGTTTATACAGATCTAGAAGTAGCTTTTGTTGTTTCAGAAGAGGAAGCCATCTTTAAGGCATTGTCCAAAACCGTGGAATTACTGGAAGGGAATACTGCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG