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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaattgtgataactgcatatttgacattttactttttcagtccccatgtgctttgttattttgaaatgtcccaatttatgtaatcctatcaaaatttatatagtatttatattcctttggtcccattttag

Basic information

species Glycine max
transcript GLYMA07G05170.1
intron # 4
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA07G05170.1 (Glycine max), 5'ss of exon 4
lower sequence: AT5G50430.2 (Arabidopsis thaliana), 5'ss of exon 4
ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaattgtgataactgcatatttgacattttactttttcagtccccatgtgctttgttattttgaaatgtcccaatttatgtaatcctatcaaaatttatatagtatttatattcctttggtcccattttag
||||||||||||| || ||||| ||||| |||||||||||||   |||||     ||  |  | |||| | || | |  || |   | || | ||  | | | ||| ||| ||  |  | | | | | ||                                               
ATTATGTGTTGGAAGGCAGTGAGGGAACGCCTTTTGCAGgtt---caaatct---tagatttacatttcaaatgtgatcttctacattccaaagtagtatatgattctgatat-ccggattctctttgatag---------------------------------------------

upper sequence: GLYMA07G05170.1 (Glycine max), 5'ss of exon 4
lower sequence: AT1G17280.2 (Arabidopsis thaliana), 5'ss of exon 4
ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaattgtgataactgcatatttgacattt-tactttttcagtccccatgtgctttgttattttgaaatgtcccaatttatgtaatcctatcaaaatttatatagtatttatattcctttggtcccattttag
|||||||| |||| || ||||| ||||||||||||||||||   | ||||  |  |   || |  |||    ||  |  | | | |  |   || |  ||| | ||  | ||||   |      |                                                     
ATTATGTGCTGGAAGGCAGTGAGGGAACACCTTTTGCAGgt---gaaaatcttctt--ttgaaagtttcttgttagtgttgtcttacgcagtatcttatttttgatactaaaattctctttaccag----------------------------------------------------

upper sequence: GLYMA07G05170.1 (Glycine max), 5'ss of exon 4
lower sequence: Vv09s0002g00280.t01 (Vitis vinifera), 5'ss of exon 5
ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaattgtgataactgcatatttgac-attttactttttcagtccccatgtgct---ttgttattttgaaatgtcccaatttatgtaatccta-----tcaaaatttatatagtatttat---attcctttggtcccattttag----
|||||||| ||||||||||||| |||||||| |||||||||||       |||  |   ||   ||||    || ||      |   |   ||| || |   ||  ||||||  | |||| |  |   | | | | |      |||| | || |||  | ||| |   | |   ||  || |||  |      
ATTATGTGCTGGAGGGAAGTGAGGGAACACCGTTTGCAGgtttttttt-ctgtctttgttgttcattttgtgatattgggcgctagtttgtcatttgttggatttgtattttttattgtctctttcattctgaactttgggattcaacagttttattctgttttttgaaatttcttcttctcatgatgataag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|193518256|gb|FK476597.1|FK476597
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|213589359|gb|DB961692.1|DB961692
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|193367615|gb|FK332077.1|FK332077
EST:     GGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: GGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|208189947|gb|GD990021.1|GD990021
EST:     GGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: GGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|193362954|gb|FK327934.1|FK327934
EST:     GGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: GGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|120495095|gb|EH223262.1|EH223262
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|24205463|gb|BU964716.1|BU964716
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|208045851|gb|GD847707.1|GD847707
EST:     GGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: GGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|207707971|gb|GD692496.1|GD692496
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|9902562|gb|BE611593.1|BE611593
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|7692130|gb|AW760244.1|AW760244
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|298173240|gb|HO020224.1|HO020224
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|298163944|gb|HO013589.1|HO013589
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|120491908|gb|EH220075.1|EH220075
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|193440118|gb|FK408519.1|FK408519
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|9264559|gb|BE352706.1|BE352706
EST:     ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
EST: gi|192331929|gb|FK026713.1|FK026713
EST:     GTGGCATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAG                         GTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC
genomic: GTGGCATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaa ... cccattttagGTGGATATTACTATGGAAAAATCAAGTTTCCTCCTGAATATCCATATAAAC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATTATGTGTTGGAGGGAAGTGAAGGAACACCTTTTGCAGgtttagcaaattgtgataactgcatatttgacattttactttttcagtccccatgtgctttgttattttgaaatgtcccaatttatgtaatcctatcaaaatttatatagtatttatattcctttggtcccattttag

- - - - TTGGAG
- - - -  TGGAGG
- - - - - - - - - -  AAGGAA