Sequence
atgc intronic sequence ATGC exonic sequencegtaaggcttgtgcttattctcgtgtgagtttctcattcttgcttctggttatgctattcttatttagttgctgatttccttgtatgcactcacacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA16G34350.1 (Glycine max), 3'ss of exon 2
-------------------------------------------------------gtaaggcttgtgcttattctcgtg--tgagtttctcattcttgcttctgg--ttatgctattcttatttagttgctgatttccttgtatgcactc-------acacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
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gtactgtttattatatttttatttaaagggttttaatgttgcgtttgtttatgtttttgtgtgtgtgtgtgtttgtgtgtttgtgtttttcaattatgattatgagactgtgtgtgtttcacttgatcatttttatttttctttgttctcttggttaattgaacaattcagGCTCAGCATGAGAGAGCTGATAATTGTGCACTCCGGGCAGAGAATGATAAGATACGTTGTGAGAACATAGCCATAAGGGAAGCCTTGAAAAATGTTATCT
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA05G33520.1 (Glycine max), 3'ss of exon 2
gtaaggcttgtgcttattctcgtgtgagtttctcattcttgcttctggttatgctattcttatttagttgctgatttccttgtatgcactcacacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
|| | | |||| | | ||| || |||| | ||| || |||| | | || | ||||||||||||| |||||||| || ||||||||||| | || || || ||||| ||||| || ||||||||||| || ||||| | ||||| || || |
---------------------gtatatcatcatcatcatcattctgcgttcatgcatgtctatt-gtctaatgacttggttgtttatttt---gttccaaatcagGCCCAACACGAAAGAGCTGACAATTGTGCTCTTCGAGCTGACAATGACAAGATACGTTGCGAGAACATAGCCATCAGGGAGGCCTTGAAGAACGTTATCT
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA08G06190.1 (Glycine max), 3'ss of exon 2
gtaaggcttgtgc-ttattctcgtgtgagtttct-cattcttgcttctggttatgctattcttatt-tagttgc-tgatttccttgta---tgcactcacacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
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-----gtatatacattattcatgtggatgtcccgacatgcataggatttgatgtgatatcatcattatatatgcatgcatgtctagtgactttaatttgtttcgatcttcagGCCCAACACGAAAGAGCTGACAATTGTGCTCTTCGAGCTGACAATGACAAGATACGTTGCGAGAACATAGCCATCAGGGAGGCCTTGAAGAATGTTATCT
upper sequence: Vv17s0053g00780.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA09G29810.1 (Glycine max), 3'ss of exon 2
----------------------------------gtaaggcttgtgcttattctcgtgtgagtttc--tcattctt----gcttctggttatgctattctt----atttagttgctgatttccttgtatgcactca--cacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
|| | || || |||| |||| ||||| | || || | | || | || | |||| |||| || || || || | | | | | | || |||| || || |||||||||||||| ||||| || || | ||||| || ||||| |||||||| ||||||||||| || || || | || ||||| || |
gtactgtttattatttttttaaaagggttttaatgttgtgtttttgtttatgtctttgtgtgtttcaattatgattatgagtctgtgtgtctgtttctcttgatcattttttttctttctttgttctttttggttaattggaacaattcagGCTCAGCATGAGAGAGCTGATAATTGTGCACTCCGGGCAGAGAATGACAAGATACGTTGTGAGAACATAGCCATAAGGGAAGCCTTGAAAAATGTTATCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atgctattcttatttagttgctgatttccttgtatgcactcacacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
cactcac putative branch site (score: 2)
caccttttt CT-rich tract
attcttatttagtt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggcttgtgcttattctcgtgtgagtttctcattcttgcttctggttatgctattcttatttagttgctgatttccttgtatgcactcacacacctttttagGCCCAACACGAGAGAGCTGATAACTGTGCTCTTCGTGTGGAGAACGATAAGATCCGTTGTGAAAACATAGCCATTAGAGAGGCTCTCAAGAATGTGATTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGAGG