Sequence
atgc intronic sequence ATGC exonic sequencegtgggttttttatttttattttttatatttatatatttattttatttttgtgacttgtgatataattttcattttttgggggtttatggtgattttgtgctgatttggttttattatatgggttatttttttaaatagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G44420.1 (Glycine max), 3'ss of exon 2
--gtgggttttttatttttattttttatatttatatatttatt-ttatttttgtgacttgtgatataattttcat-tttttgggggtttatggtgattttgtgctgatttggttttattatatgggttattttttta-aatagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
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gtggggcttgttccatttcacttttgttgttgttgttgttgttattattattatta-ttattgtttatctctagtgttgattaggttttatcacattatttgacccttttttttttctttt-----ttctttttaaataatagGCTTGAGCAGGAGTCTGGGTTTTTCTTTAACATGAAATATTTCGAGGATGAAGTGCACAATGGTAATTGGGATGAGGTTGAGAGGTACCTCTCTGGTTTC
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G00880.1 (Glycine max), 3'ss of exon 1
gtgggttttttatttttattttttatatttatatatttatt-ttatttttgtgacttgtgat-ataattttcatttt--ttgggggtttatggtgattttgtgctgatttggttttattatatgggttatttttttaaa-------tagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
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gtggggcttgttccattgcagtttctttttttgttattgttgttgttgtcgtcgtcgttaattataattattattatcattggttatctctagtg---ttgattaggttttatctcattatttgactattttttttaaaaaaataatagGCTTGAGCAGGAGTCTGGGTTTTTCTTTAACATGAAATATTTTGAGGATGAAGTGCACAATGGTAATTGGGACGAGGTTGAGAGGTACCTCTCTGGTTTC
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA08G22910.1 (Glycine max), 3'ss of exon 1
-----gtgggttttttatttttattttttatatttatatatttattttatttttgtgacttgtgatataattttcattttttgggggtttatggtgattttgtgctgatttggttttattatatgggttatttttttaaatagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
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gtggggctagtttgttattttgttaggttatttttggggtgtttttttttttttgta--tttttataccacattcattaattaactatttttt---atttt------attttattttttgttaaaaataat-------aatagGCTTGAGCAGGAGTCAGGGTTTTTCTTTAACATGAAATATTTTGAGGATGAAGTGCACAATGGCAATTGGGATGAGGTGGAGAAATACCTCTCTGGTTTC
upper sequence: Vv09s0002g08370.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA07G03180.1 (Glycine max), 3'ss of exon 2
gtgggttttttatttttattttttatatttatatatttattttatttttgtgacttgtgatataattttcattttttgggggtttatggtgattttgtgctgatttggttttattatatgggttatttttttaaatagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
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---------------------------------------gtttgttattttgttaggttatttttggtgtgttttttgtatttttataccacattcat--taattaacttgttttatttttgttaaaaataataatagGCTTGAGCAGGAGTCAGGGTTTTTCTTTAACATGAAATATTTTGAGGATGAAGTGCACAATGGCAATTGGGATGAGGTGGAGAAATACCTCTCTGGTTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatggtgattttgtgctgatttggttttattatatgggttatttttttaaatagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
tgctgat putative branch site (score: 3)
ttattttttt putative PPT
atttggttttattata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggttttttatttttattttttatatttatatatttattttatttttgtgacttgtgatataattttcattttttgggggtttatggtgattttgtgctgatttggttttattatatgggttatttttttaaatagGCTTGAACAGGAATCTGGGTTTTTCTTTAACATGAAGTATTTTGAGGATGAGGTACATAGTGGGAATTGGGATGAGGTTGAGAAGTACCTCTCTGGTTTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT