Sequence
atgc intronic sequence ATGC exonic sequencegtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: LOC_Os06g49130.2 (Oryza sativa), 3'ss of exon 6
gtatgttttattcatttcttttagtatctgtcattatgttggat-tattgtctgagcaatcgctcttatgtttgaacatttgcttctat----tttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
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agaggaaggggtaagcactttctccttctgttaggctgtagagtattttatctatactgattcttgcatactgatttgttcctattgattggatctacagTGGGTTCAGTGTGACAAATGTGAATGCTGGCAACATCAGATCTGTGCACTTTTCAATGCCAGAAGAAATGATGTTGAAGAAGCAGAATACACTTGCTTCA
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G139977_T01 (Zea mays), 3'ss of exon 6
gtatgttttattcatttcttttagtatctgtcattatgttggattatt-gtctgagcaatcgctcttatgt-ttgaacatttgc-----ttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
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gtaagtactg--cagttccattgatatgtggtttcataaaagctcaagagtttctgatatttttcttttgtgctaaacattttcaaaccacacattctgcagTGGGTTCAATGTGACAAATGTGAATGTTGGCAACATCAAATTTGTGCTTTATTTAATGGAAGAAGGAACGATGGAGGACAAGCTGAATATACTTGCCCCA
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GRMZM2G470556_T01 (Zea mays), 3'ss of exon 6
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgct-----tctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
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gtatgttttg--cagttccattgatacacataa--aagctcaaaagtt-tctaatatttttctttggtgct-aaacattttcaaatcatgcattctgcagTGGGTTCAATGTGACAAATGTCAATGCTGGCAACATCAAATTTGTGCTCTATTTAATGGAAGAAGGAACGGTGGAGGACAAGCTGAATATACTTGCCCCC
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA08G24290.1 (Glycine max), 3'ss of exon 9
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
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---------gtatgttaagtgtgccatgtgtcattttgttgttcagttaacaagtttttttgttttat---taaccatctattctttgtgtgcagTGGGTTCAATGTGATAAGTGTGAAGCATGGCAACATCAAATTTGTGCCTTATTTAATGGTAGAAGAAATGATGGTGGACAAGCTGAATATACTTGCCCTA
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA07G00230.1 (Glycine max), 3'ss of exon 7
gtatgttttattcatttcttttagtatctgtcat-tatgttggattattgtctgagcaatcgctcttatgtt--tgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
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---------------gtatgttaa-gtgtgccatatgtgtcatttggttgttcagctaagtttttttgttttattaaccatctattctctgtgtgcagTGGGTTCAATGTGATAAATGTGAAGCATGGCAACATCAAATTTGTGCTTTATTTAATGGCAGAAGAAATGATGGTGGACAAGCTGAATATACTTGCCCTA
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: GLYMA15G00250.1 (Glycine max), 3'ss of exon 7
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattt---tgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
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----------------gtgcgtatcatgtcttattttgtttattgattggcagtttactttgttttaa---taaccatctactt-tatctgcatgcagTGGGTTCAATGTGATAAATGTGAGGCATGGCAACATCAAATTTGTGCCTTATTTAATGGTCGAAGAAATGATGGTGGACAAGCTGATTACACTTGCCCTA
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT3G12980.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgttttattcatttct---tttagtatctgtcattatgttggattattgtctgagcaatcgctct----tatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA---
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gtatgcctcttcagttactgagttctgcaattgtt-ttatag-ggattattttat-attagctgctttactctttttctgaaccattaattctgt---gcagTGGGTGCAATGTGATAAATGTCAAGCATGGCAGCATCAAATTTGTGCTTTGTTCAACGGCCGTAGGAATCATGG---GCAAGCCGAGTACACTTGCCCTAATT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G16710.1 (Arabidopsis thaliana), 3'ss of exon 7
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttc----tattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
||| | | || | | | ||| | | | | || ||| || | || | | ||| | ||||| |||| || | ||||| ||||||| |||||||| |||||| | || ||||| |||||||| ||||| | || ||||| |||||||||||||| ||||| ||||| ||||| |||||
gtaagact-atcctatcagtagagt-tgtattgtcat-ttgcatc-tcgttttgttggtttttctga-gtttgtctatttcgtttgatgttttttgtagTGGGTCCAATGTGATAAATGTCAGGCCTGGCAGCATCAAATATGTGCTCTATTTAATGGGCGGAGGAATGATGGGGGGCAAGCTGAGTATACCTGCCCAT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: AT1G79000.2 (Arabidopsis thaliana), 3'ss of exon 8
----------gtatgttttattcatttcttttagtatctgtcatt-atgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
| | | | | || |||| || | |||| | || | | || | | || || || |||| | || | ||||||||||||| |||||||| |||||||| || ||||| ||||| || ||||| || || ||||| | |||||||| || ||||||||||| ||||| |||||
gtaaaagcctatccactctgtagacttatttt-gtgtttgtctcccgtctttgtatgtttttttagt--tcatgctatattttgtttctatgtatgatttttgcagTGGGTCCAATGTGATAAATGTGAGGCGTGGCAGCATCAGATATGTGCTTTATTTAATGGGAGAAGGAATGACGGAGGGCAGGCTGAGTATACCTGCCCAT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ09423 (Selaginella moellendorffii), 3'ss of exon 2
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
|||| || ||| || || ||| | || | | || ||| ||| | || |||||||||||||||||||||| || | | ||||| |||||||| |||||||| || |||||| | || ||||| ||||| | | |||| || ||||||
-----------------------gtatgtgcttctatatt------ttttct---ctttccttgaaacgtctga---cttgtatggtttatgcagTGGGTTCAATGTGACAAGTGCAATGTATGGCAGCATCAAATCTGTGCCTTATTTAATGGTAGAAGAAATGAAGGTGGTGACACGGAATTTATTTGCCCCT
upper sequence: Vv09s0054g01780.t01 (Vitis vinifera), 3'ss of exon 6
lower sequence: EFJ34595 (Selaginella moellendorffii), 3'ss of exon 5
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttg-cttctat----tttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
|||| ||| || | || ||| | ||| | ||||| || ||| | | ||| ||| | |||||||||||||||||||||| || | | ||||| |||||||| |||||||| || |||||| | || ||||| ||||| | | |||| || ||||||
-----------------------gtatgtgtttttttttt--tttact-tctatattttttctctttccttgaaacgtccgacttgtatggtttatgcagTGGGTTCAATGTGACAAGTGCAATGTATGGCAGCATCAAATCTGTGCCTTATTTAATGGTAGAAGAAATGAAGGTGGTGACACGGAATTTATTTGCCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
tttgcttctatttt CT-rich tract
ttctatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttttattcatttcttttagtatctgtcattatgttggattattgtctgagcaatcgctcttatgtttgaacatttgcttctattttgcagTGGGTTCAATGTGACAAATGTGAAGCTTGGCAACATCAAATTTGTGCCTTGTTCAATGGTCGGAGGAATGATGGTGGGCAGGCTGAATATACTTGCCCTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG