Sequence
atgc intronic sequence ATGC exonic sequence...taaatttgtagttttgaaacattcaactgtatatttgtgaggaaaattggacttaaaatatgatgcaattgattacatttttgtctactttggtgggcagGGATTTCGAAAGAGTGATCCTGAGAGATGGGAATTTGCTAATGAAGATTTTGTGAAAGATCAAAAGCATCTCCTTAAGAATATTCACCGCAGAAAACCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0029g00350.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA05G28460.1 (Glycine max), 3'ss of exon 1
taaatttgtagttttgaaacattcaactgtatatttgtgaggaaaattggacttaaaatatgatgcaattgattacatttttgtctact--ttggtgggcagGGATTTCGAAAGAGTGATCCTGAGAGATGGGAATTTGCTAATGAAGATTTTGTGAAAGATCAAAAGCATCTCCTTAAGAATATTCACCGCAGAAAACCTA
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--agcattttttttctttttcttaatacatatttttgagcatttaataaaaccaaatattggttttatttgttttggtctattgatattgctctattatcagGGATTTCGAAAAATACATCCAGAGCGATGGGAATTTGCTAATGATGAGTTTCTGAAAGATCAGAAGCATCTTCTTAAGAATATATATCGCAGGAAACCTA
upper sequence: Vv05s0029g00350.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G11460.1 (Glycine max), 3'ss of exon 1
taaatttgtagttttgaaacattcaactgtatatttgtgaggaa--aattggacttaaaatatgatgcaattgattacatttttgtctact--ttggtgggcagGGATTTCGAAAGAGTGATCCTGAGAGATGGGAATTTGCTAATGAAGATTTTGTGAAAGATCAAAAGCATCTCCTTAAGAATATTCACCGCAGAAAACCTA
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-gggcgtttatttttt---ttctttaatacatattttcaagcatttaataaaaccattatttggttttatttgtttttgtctattgatattgctctgttatcagGGATTTAGAAAAATACATCCAGAGCGATGGGAATTTGCTAATGATGAGTTTCTGAAAGATCAGAAGCATCTTCTCAAGAATATACATCGCAGGAAACCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attggacttaaaatatgatgcaattgattacatttttgtctactttggtgggcagGGATTTCGAAAGAGTGATCCTGAGAGATGGGAATTTGCTAATGAAGATTTTGTGAAAGATCAAAAGCATCTCCTTAAGAATATTCACCGCAGAAAACCTA
aattgat putative branch site (score: 4)
tttttgtctacttt putative PPT
aattgattacattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
taaatttgtagttttgaaacattcaactgtatatttgtgaggaaaattggacttaaaatatgatgcaattgattacatttttgtctactttggtgggcagGGATTTCGAAAGAGTGATCCTGAGAGATGGGAATTTGCTAATGAAGATTTTGTGAAAGATCAAAAGCATCTCCTTAAGAATATTCACCGCAGAAAACCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - -gaaacat
- - - - - - - - - - - - - - - - - - - - ggaaaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - aaaatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -gatgcaa