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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

GCTGGTAAGGCTGACTTTGAACTGCTTGAGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaaacataaaatttctgtaaaaaggggaaacataaaacagtatttatcgactaaataggttctaataaaggtctttgtggtattttacag

Basic information

species Glycine max
transcript GLYMA17G07380.1
intron # 20
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA17G07380.1 (Glycine max), 5'ss of exon 20
lower sequence: AT5G57655.1 (Arabidopsis thaliana), 5'ss of exon 11
----------------------GCTGGTAAGGCTGACTTTGAACTGCTTGAGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaa----ctcaaaacataaaatttc-tgtaaaaaggggaaacataaaacagtatttatcgactaaataggttctaataaaggtctttgtggtattttacag
                      |  || || ||||| |||||    ||||||||||| |  || || |  ||||||||||||||| ||||||| |||||||||      ||     || || | |  | |      |  |||||  ||| |  |   |  || |  ||   || | | || |   | ||  |          
TGAGCTTGGGAAGCAAATAGAAGAAGGAAAAGCTGATTTTGAGTATCTTGAGAAGAAAGCTAAAGAGTTTGGAGAACCAAAGGTTTCTTCTGCTAAACAGgtacaagtttcttgctattaattctggttttgtttcgttaaacacgaaa-aacacacaatga-tcgatgtcttttga-aacgaaatctgcag----------

upper sequence: GLYMA17G07380.1 (Glycine max), 5'ss of exon 20
lower sequence: Vv11s0052g01710.t01 (Vitis vinifera), 5'ss of exon 21
GCTGGTAAGGCTGACTTTGAACTGCTTGAGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgta--actcaaaacataaaatttctgtaaaaaggggaaacataaaacagt-atttatcgactaaataggttctaataaa--ggtctttgtggtattttacag
|||||||||||||| |||||| |||| |||||||| | || |||||||||||| ||||||||| |||||||||| ||||||  |||  ||  |||| ||| || |   ||       | ||  |||||    || | | |   |    | |        || || |||   |  | || |
GCTGGTAAGGCTGATTTTGAAATGCTAGAGAAGAAAGCCATGGAATGGGGAGAGCCAAAGGTTCCTTCTGCGAAGCAGgtataacttgaagtataagattcctattttaattttctgcttatgacagtcgcatagcaa-tctgtgatctgtggccgtttggcctgtgtaa-agatgactg
















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|6725436|gb|AW309835.1|AW309835
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|207821964|gb|GD796881.1|GD796881
EST:     AAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTTCTTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGC-TTC-TGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|151410382|gb|EV280197.1|EV280197
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|7588192|gb|AW703993.1|AW703993
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|208160487|gb|GD960435.1|GD960435
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|298173204|gb|HO020188.1|HO020188
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|18693005|gb|BM521853.1|BM521853
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|22524803|gb|BU083614.1|BU083614
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|18733023|gb|BM527382.1|BM527382
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|21887322|gb|BQ740535.1|BQ740535
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|151407803|gb|EV277618.1|EV277618
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|5175496|gb|AI759829.1|AI759829
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|10234449|gb|BE803337.1|BE803337
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|51335738|gb|CO979604.1|CO979604
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|208192569|gb|GD994169.1|GD994169
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|22525640|gb|BU084451.1|BU084451
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|20814470|gb|BQ298948.1|BQ298948
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|19934808|gb|BQ079838.1|BQ079838
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|193579689|gb|FK536374.1|FK536374
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|13252690|gb|BG363593.1|BG363593
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|7030028|gb|AW459811.1|AW459811
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|9903061|gb|BE612029.1|BE612029
EST:     GAAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: G-AAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|163921552|gb|EH039311.1|EH039311
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|192327522|gb|FK018198.1|FK018198
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|208062973|gb|GD860875.1|GD860875
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTCCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|193547824|gb|FK505105.1|FK505105
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|22524847|gb|BU083658.1|BU083658
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
EST: gi|22932991|gb|BU550130.1|BU550130
EST:     AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAG                         GAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC
genomic: AGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaa ... tattttacagGAGCTAGCCGAGATGATCCTCCAATCTGTTCTGTAGAAAGTAGAATCTAGC

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
GCTGGTAAGGCTGACTTTGAACTGCTTGAGAAGAAGGTCAAGGAATGGGGAGAACCAAAGGTTGCTTCTGCGAAACAGgtaactcaaaacataaaatttctgtaaaaaggggaaacataaaacagtatttatcgactaaataggttctaataaaggtctttgtggtattttacag

- - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - GGAGAA