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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag

Basic information

species Glycine max
transcript GLYMA03G27620.1
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01140.t01 (Vitis vinifera), 5'ss of exon 5
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaatta---caaatatatgttaatataactaattaaagttcttctgtgttttag----
|||||  || |||||    || ||| |||  || |||||||||||||||||||  || ||||| |||||||||||||||| |||| ||||| |||| |||||| || |    |  | ||   || | |  ||  | ||  |   | | |||  || |||   |  || | |||||  ||   |  |   | |   ||  |  |   |    
TTTTAGAAGCATGTACAAACACATTTCTATGGGATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTACACTACAGAAAGTTTGAAGgtaactaat--ttctgttca--aacacttcatatacttg-tggcatggttttccatttaactctcatctctgttacaatg--ttgtctcattctctcaataatgccgctag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01360.t01 (Vitis vinifera), 5'ss of exon 8
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| || ||||| || || ||| | || || || ||||||||||||||||| || ||||| |||||||||||||||||||||||||||||||| |||||| ||      || ||||   | |  |||||| | | |    |    |  || || || |  ||  || |    |   || | ||    | ||| |||   ||
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactct---ttttgctca-aacacttcaattgagtcagggcttg--tagattaactaaagttacttggt----ttcttactgaagtcccctctctgtcacag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01220.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| |||||||| || || ||| | || || || ||||||||||| ||||| || ||||| |||||||||||||| ||||||||||||||||| |||||| |   ||| |  |||     |||||   | |||| |||   | | |||     |||   |||     |    |    | |  |    | ||| ||||  ||
CTTTAAAAGTATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCCGATCAGGATCATGGTTGGCAAGTTTCTGACTGCACTGCAGAAGGTTTGAAGgtaac---caattctgct-----aaaatacttcaattgaat--cagggtttgcaggttaactataatcacttggtttctcactggagtcccctctctgttacag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 14
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctg--acaacttagctcgtgaaaaatcaattaatttaataataag---ctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| || ||||| || || ||| | ||||| || ||||||||||||||||| || ||||| |||||||||||||||||||||||||||||||| |||||| |||   ||  ||| ||     ||| ||  ||  |||  || |||    |  | || ||||||                                           
CTTTAAAAGCATGTACCGCCACATTTCCAAAGGATCATGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactgttgcagattaact-----aaagtctcttggtttcttactaaagtcccctctctattacag------------------------------------------

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01420.t01 (Vitis vinifera), 5'ss of exon 1
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattac-aaatatatgttaatataactaattaaagttcttctgtgttttag
          |||||    || ||| |||| |  |||||||||||||||||||  || ||||| ||||||||||||||||||||| ||||| |||| |||||| || |  | || | ||   || | |  ||  | ||  |   | | |||  || | |   |||     |   | | ||                         
----------ATGTACATACACATTTCTAAGGAATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTGCACTACAGAAAGTTTGAAGgtaactaa--attttgttca--aacacttcatatacttg-tcgcatggttttccattaattgaattctcatctctgttacag-----------------------

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01470.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| || |||||||| || ||| | ||||| || ||||||||||||||||| || ||||| |||||||||||||||||||||||||||||||| ||||||       ||||     ||  |||  || |||||| | | |   ||||    |   || ||  |   ||  | |  || | | |||| |  || ||||  ||
CTTTAAAAGCATGTATCGCCACATTTCCAAAGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgta-------actttttctgttcaaa--cacttaattgagtca-gggcttgcagatgaactaaagtcacttggttt--ctcactgaagtacc-ctctgttacag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01390.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaatta-caaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| || ||||||||  | ||| |  |||| || ||||||||||||||||| || ||||| |||||||||||||||||||||||||||||||| ||||||       | ||   | ||  |||  || |||||| | |   | |  || |  |||| | ||  |   ||  | |  || | | |||| |  || ||||  ||
CTTTAAAAGCATGTATCGCAAAATTTCCCAAGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgta-------attttttttgttcaaa--cacttaattgagt--cagggcttgtagattaactaaagtcacttggttt--ctcactgaagtacc-ctctgttacag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01510.t01 (Vitis vinifera), 5'ss of exon 1
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagcttt--atcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
          |||||  | || ||| |||| |  |||||||||||||||||||  || ||||| |||||||||||||||||||||  |||| |||| |||||| || |  | |  | ||   || | |  ||  | ||  |     | |||  || ||||   |||     |  || | ||    |    | ||||| |   | | 
----------ATGTACAGACACATTTCTAAGGAATCTTGGACATTCTCAGATCGGGATCATGGTTGGCAAGTTTCTGATTGCACTATAGAAAGTTTGAAGgtaactaa--attctgttca--aacacttcatatacttgttgcatggttttccattaattg--aattctcatctatgttacagtgttgtctccttctctcagtaat

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01520.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag---
|||||  || |||||| |  | |||  ||| || ||||||||||||| |||||  || ||||| |||||||||||| |||||||  || || |||| ||||||    | || ||  ||  | ||| |     ||   |  |   | | |||  || |||    |      |  || |     ||        || ||  |   |   
TTTTAGAAGCATGTATAGATACATTTTTAAGGGATCTTGGACATTCTTAGATCGGGATCATGGTTGGCAAGTTTCTAATTGCACAACAAAAAGTTTGAAGgta---aataaatt--ctattcaaacacttcatatacttgtggcatggttttccatttaactctcatctctgttacagt--gttgtctgctctcagtaatgccgcca

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01210.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgt-taatataactaattaaagttcttctgtgttttag
|||||   | |||||  | || ||| |||| || |||||||||||||| | ||  || ||    |||||||||||||||||||||||||||||||| |||||| ||   || ||   | |  | |  ||||| || |  | |      |  || ||||  |     || | |  || |                           
TTTTAGAGGCATGTACAGACACATTTCTAAGGGATCTTGGACATTCTCGGTTCGGGATCAGCATTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTCAAGgtaact---aaattctattgaaacacttcaatcaagt-gacatggttttccattaattgaactctcatctctgttacag--------------------------

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01410.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| || ||||| || || ||| | || || || ||||||||||||||||| || ||||| |||||||||||||||||||||||||||||||| |||||| ||      || ||||   | |  |||||||| | |    |       || || |  |  ||  || |    |   || | ||    | ||| |||  |||
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactct---ttttgctca-aacacttcaattaagtcagggcttg--cagattaactgaagttacttggt----ttcttactgaagtcccctctctgtcatag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01340.t01 (Vitis vinifera), 5'ss of exon 3
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag
 ||||| || |||||||| || ||| | ||||| || ||||||||||||||||| || ||||| |||||||||||||||||||||||||||||||| ||||||       ||||     ||  |||  || |||||| | | |   ||||    | | || ||  |   ||  | |  || | | |||| |  || ||||  ||
CTTTAAAAGCATGTATCGCCACATTTCCAAAGGTTCGTGGACATTCTCAGATCAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgta-------actttttctgttcaaa--cacttaattgagtca-gggcttgcagattaactaaagtcacttggttt--ctcactgaagtccc-ctctgttacag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01280.t01 (Vitis vinifera), 5'ss of exon 7
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttct-tctgtgttttag
 ||||| || ||||| || || ||| | || || || ||||||||||||||||| || ||||| || |||||||||||||||||| |||||||||| |||||| ||      || ||||   | |  |||||| | | ||      ||||    | | || ||  |   ||  | |  || | |||||| |  ||| |||   ||
CTTTAAAAGCATGTACCGCCACATTTCCAAGGGATCGTGGACATTCTCAGATCAGGATCATGGTTGCCAAGTTTCTGATTGCACTACAGAAGGTTTGAAGgtaactct---ttttgctca-aacacttcaattgagtcaa-----ggcttgcagattaactaacgttacttggttt--cttactaaagtcccctctctgtcacag

upper sequence: GLYMA03G27620.1 (Glycine max), 5'ss of exon 7
lower sequence: Vv09s0054g01230.t01 (Vitis vinifera), 5'ss of exon 10
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttct-tctgtgttttag
 ||||| || ||||| || || ||| | ||||| || ||||||||||||||| | || ||||| |||||||||||||||||||||||||||||||| |||||| ||      |  ||||   | |  |||||| | | |       ||||    | | || ||  |   ||  | |  || | |||||| |  ||| ||||  ||
CTTTAAAAGCATGTACCGCCACATTTCCAAAGGATCGTGGACATTCTCAGATAAGGATCATGGTTGGCAAGTTTCTGATTGCACTGCAGAAGGTTTGAAGgtaactct---ttctgctca-aacacttcaattgagtcag-----ggcttgcaaattaactaaagtcacttggttt--ctcactaaagtcccctctctgttacag

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
TTTTAAGAGTATGTATCGTCATATTACTAAAGGGTCTTGGACATTCTCAGATCAAGACCATGGATGGCAAGTTTCTGATTGCACTGCAGAAGGTTTAAAGgtatctgacaacttagctcgtgaaaaatcaattaatttaataataagctttatcaattacaaatatatgttaatataactaattaaagttcttctgtgttttag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CTGCAG