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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AAAATTGGCTAGGTTGAAACAGGCCAAGGAAGAGGCTGAAAAGGAGATTGCTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctatgattatattttgctgctgttaagactatcccattacattattctaatttatggtgtattctccctgctttcttattattactacag

Basic information

species Glycine max
transcript GLYMA13G20310.3
intron # 3
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G20310.3 (Glycine max), 5'ss of exon 3
lower sequence: Vv08s0040g01910.t01 (Vitis vinifera), 5'ss of exon 2
AAAATTGGCTAGGTTGAAACAGGCCAAGGAAGAGGCTGAAAAGGAGATTGCTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctatgattatattttgctgctgttaagact---atcccattacattattctaatttatggtgtattctccctgctttcttattattactacag--
|||| |||||||  | ||||| ||||| |||||||||||||||||||||||||  |||||||| ||  | ||   |||||| || |||||| || | || |||||| || |   ||    | |     | ||||      ||  |||    ||||     || ||  |  |||| |   | |      | | || |     
AAAAATGGCTAGACTAAAACAAGCCAAAGAAGAGGCTGAAAAGGAGATTGCTGCTTACCGAGCCCAGGTTGAACTTGAGTTCCAGAAGAAATTGGCTGAGgtaagtataggtggattcagtccattcataaagaactgagtcagattgacctattaaggcttctga-gccttcttcacccatatggcatgtcacaatcaat
















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|151403808|gb|EV273618.1|EV273618
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|4286553|gb|AI441063.1|AI441063
EST:     CTGAATNCCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTGCTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|207812922|gb|GD783610.1|GD783610
EST:     CTGAATACCGAGCTCAACTAGGGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|213591036|gb|DB975180.1|DB975180
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|192325493|gb|FK017219.1|FK017219
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|8827036|gb|BE210766.1|BE210766
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|192300654|gb|FG989641.1|FG989641
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|208034348|gb|GD833418.1|GD833418
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
EST: gi|120528947|gb|EH257081.1|EH257081
EST:     CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGAC                         AGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA
genomic: CTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctat ... attactacagAGTACTGGAGATTCTGGAGCTAATGTCAAGCGGCTTGAGCAAGAGACCGAA

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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
AAAATTGGCTAGGTTGAAACAGGCCAAGGAAGAGGCTGAAAAGGAGATTGCTGAATACCGAGCTCAACTAGAGGCTGAGTTTCAAAAGAAAGTGTCAGACgtaagtctatgattatattttgctgctgttaagactatcccattacattattctaatttatggtgtattctccctgctttcttattattactacag

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAA