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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatgttaatttagcttttttttttttag

Basic information

species Glycine max
transcript GLYMA03G27660.1
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01140.t01 (Vitis vinifera), 5'ss of exon 5
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaactta-gctcataaacaactta-atttgttataagctttatcaatcactacaaatatatgtta--atttagcttttttttttttag-----------
|||||  || |||||    || |||||||  || |||||||||||||| ||||  ||||| || |||||||||||||||| |||  |||||| |||||| |||||||| ||  | ||| | ||  | || | ||||   | | |||  || | |   |  || | |||||  || | |  |  || | |  |            
TTTTAGAAGCATGTACAAACACATTTCTATGGGATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTACACTACAGAAAGTTTGAAGgtaactaatttctgttcaaacacttcatatacttgtggcatggttttccatttaactctcatctctgttacaatgttgtctcattctctcaataatgccgctag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 5'ss of exon 8
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag--
 ||||| || ||||| || || ||||| || || || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||||  |||||| ||||||   || |||||  ||||  | ||||   |    ||||    | | |||| |  ||  ||     ||| |  ||     | | | | |   
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactctttttgctca--aacacttcaattgagtcagggcttgtagattaactaaagttacttggtttcttactgaagtcccctctctgtcacag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatca-ctacaaatatatg-----ttaatttagcttttttttttttag--
 ||||| |||||||| || || ||||| || || || ||||||||||| ||||| ||||| || |||||||||||||| ||||| ||||||  |||||| ||||| || |  ||   ||||  |||| | |||    | | |||     | | ||| ||  |  ||     | | |  ||     | | | |||   
CTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTGACTGCACTGCAGAAGGTTTGAAGgtaaccaattctgc---taaaatacttcaattgaatcagggtttgcaggttaactataatcacttggtttctcactggagtcccctctctgttacag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 14
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcat---aaacaacttaatttgtta-taagctttatcaatcactacaaatatatgttaatttagcttttttttttttag
 ||||| || ||||| || || ||||| ||||| || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||||  |||||| ||||||     || | |    ||    |||  ||| ||| |||  |         | ||||                                
CTTTAAAAGCATGTACCGCCACATTTCCAAAGGATCATGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactgttgcagattaactaaagtctcttggtttcttactaaagtcccctctctattacag-------------------------------

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01420.t01 (Vitis vinifera), 5'ss of exon 1
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaa-cttagctcataaacaactta-atttgttataagctttatcaatcactacaaatatatgttaatt-tagcttttttttttttag
          |||||    || |||||||| |  |||||||||||||| ||||  ||||| || ||||||||||||||||||||  |||||| |||||| ||||||||  || | ||| | ||  | || | ||||   | | |||  || | | |  |     || |   ||  ||               
----------ATGTACATACACATTTCTAAGGAATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTGCACTACAGAAAGTTTGAAGgtaactaaattttgttcaaacacttcatatacttgtcgcatggttttccattaattgaattctcatctctgttacag---------------

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01470.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag
 ||||| || |||||||| || ||||| ||||| || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||||  |||||| ||||||   |  | |||  |||| |||||||   |    ||||    |   |||| |   |  ||     | | |  ||     | | ||  ||
CTTTAAAAGCATGTATCGCCACATTTCCAAAGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactttttctgttca--aaca-cttaattgagtcagggcttgcagatgaactaaagtcacttggtttctcactgaagtaccctctgttacag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag
 ||||| || ||||||||  | |||||  |||| || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||||  |||||| |||| |   || | |||  |||| |||||||   |    ||||    | | |||| |   |  ||     | | |  ||     | | ||  ||
CTTTAAAAGCATGTATCGCAAAATTTCCCAAGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaattttttttgttca--aaca-cttaattgagtcagggcttgtagattaactaaagtcacttggtttctcactgaagtaccctctgttacag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01510.t01 (Vitis vinifera), 5'ss of exon 1
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaactta-gctcataaacaactta-atttgttataagctttatcaatcactacaa----atatatgttaatttagc-ttttttttttttag----
          |||||  | || |||||||| |  |||||||||||||| ||||  ||||| || ||||||||||||||||||||   ||||| |||||| |||||||| ||  | ||| | ||  | || | |||||  | | |||  || | | |  |     || |||||||   |    | |  || | | ||    
----------ATGTACAGACACATTTCTAAGGAATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTGCACTATAGAAAGTTTGAAGgtaactaaattctgttcaaacacttcatatacttgttgcatggttttccattaattgaattctcatctatgttacagtgttgtctccttctctcagtaat

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01210.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaattt-gttataagctttatcaatcactacaaatatatgttaatt-tagcttttttttttttag
|||||   | |||||  | || |||||||| || |||||||||||||| | ||  ||||||   |||||||||||||||||||| ||||||  ||| || |||||||| ||   |   |||||  | |||   || | | | |||  || | | |  |     || |   ||  ||               
TTTTAGAGGCATGTACAGACACATTTCTAAGGGATCTTGGACATTCTCGGTTCGGGATCAGCATTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTCAAGgtaactaaattctattg-aaacacttcaatcaagtgacatggttttccattaattgaactctcatctctgttacag---------------

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag--
 ||||| || ||||| || || ||||| || || || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||||  |||||| ||||||   || |||||  ||||  | ||||   |    ||||    | | |||  |  ||  ||     ||| |  ||     | | | | |   
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactctttttgctca--aacacttcaattaagtcagggcttgcagattaactgaagttacttggtttcttactgaagtcccctctctgtcatag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01340.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag
 ||||| || |||||||| || ||||| ||||| || ||||||||||| ||||| ||||| || |||||||||||||||||||| ||||||  |||||| ||||||   |  | |||  |||| |||||||   |    ||||    | | |||| |   |  ||     | | |  ||     | | ||  ||
CTTTAAAAGCATGTATCGCCACATTTCCAAAGGTTCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactttttctgttca--aaca-cttaattgagtcagggcttgcagattaactaaagtcacttggtttctcactgaagtcccctctgttacag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01280.t01 (Vitis vinifera), 5'ss of exon 7
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag--
 ||||| || ||||| || || ||||| || || || ||||||||||| ||||| ||||| || || |||||||||||||||||  |||||  |||||| ||||||   || |||||  ||||  | ||||   |  | ||||    | | ||||    ||  ||     ||| |  ||     | | | | |   
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGCCAAGTTTCTGATTGCACTACAGAAGGTTTGAAGgtaactctttttgctca--aacacttcaattgagtcaaggcttgcagattaactaacgttacttggtttcttactaaagtcccctctctgtcacag

upper sequence: GLYMA03G27660.1 (Glycine max), 5'ss of exon 3
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatg-----ttaatttagcttttttttttttag--
 ||||| || ||||| || || ||||| ||||| || ||||||||||| ||| | ||||| || |||||||||||||||||||| ||||||  |||||| ||||||   |  |||||  ||||  | ||||   |    ||||    | | |||| |   |  ||     | | |  ||     | | | |||   
CTTTAAAAGCATGTACCGCCACATTTCCAAAGGATCGTGGACATTCTCAGATAAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactctttctgctca--aacacttcaattgagtcagggcttgcaaattaactaaagtcacttggtttctcactaaagtcccctctctgttacag

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTAAGAGTATGTATCGTCATATTTCTAAAGGGTCTTGGACATTCTCTGATCAAGATCAGGGATGGCAAGTTTCTGATTGCACGGCAGAAACTTTGAATgtaactaacttagctcataaacaacttaatttgttataagctttatcaatcactacaaatatatgttaatttagcttttttttttttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA