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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...agtttctggctgtgacctgagtatttttataacctataggtatttttttaacaaactttgcttatcttgagatttgtttaatttattttttttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGATAGTGACAGGTGAACTGATTTCGTTATCAGAACAAGAATTGGTGGATTG

Basic information

species Glycine max
transcript GLYMA14G09440.1
intron # 1
splice site 3'
intron type U2

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|209712073|gb|BW674220.1|BW674220
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGA
EST: gi|209709575|gb|BW661902.1|BW661902
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|209729438|gb|BW651818.1|BW651818
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|7925521|gb|AW831547.1|AW831547
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|209728926|gb|BW651716.1|BW651716
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|5606377|gb|AI900531.1|AI900531
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|209699199|gb|BW656188.1|BW656188
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|16996584|gb|BM085956.1|BM085956
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|11413180|gb|BF425191.1|BF425191
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|9258974|gb|BE347121.1|BE347121
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|15285534|gb|BI469425.1|BI469425
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|213599691|gb|DB968397.1|DB968397
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCG
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCG
EST: gi|9440374|gb|BE440880.1|BE440880
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|15814104|gb|BI786379.1|BI786379
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|213593791|gb|DB957911.1|DB957911
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGA
EST: gi|213600638|gb|DB968770.1|DB968770
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAA-TAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|209720674|gb|BW677519.1|BW677519
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|209719075|gb|BW674863.1|BW674863
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTG
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTG
EST: gi|213611001|gb|DB970928.1|DB970928
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAAT
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAAT
EST: gi|9986659|gb|BE660767.1|BE660767
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|15285045|gb|BI468936.1|BI468936
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAAGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGGATAAAATA-G
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAA-TAAG
EST: gi|15814472|gb|BI786747.1|BI786747
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAA
EST: gi|298184972|gb|HO030185.1|HO030185
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|213596063|gb|DB966310.1|DB966310
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCG
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCG
EST: gi|209707220|gb|BW656838.1|BW656838
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAGGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|11687568|gb|BF595244.1|BF595244
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAAGAGGCTGGG                         GGAGCTGT-GCGGCATTCTTAGCAATCGGTGCAGCTGAAAGGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTG-GGCATTCTCAGCAATCGGTGCAG-TGGAAGGA
EST: gi|120531667|gb|EH259800.1|EH259800
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
EST: gi|24205301|gb|BU964554.1|BU964554
EST:     GGAGGAAAGGAAG-TGCTGTTCCTCCAGTNCAA-GAC-AAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCCGTGCAGTGGGAAGAAATAAATAAG
genomic: GGAGGAA-GGAAGGTGCTGTTCCTCCAGT-CAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGG-AAGGAATAAATAAG
EST: gi|209704036|gb|BW673636.1|BW673636
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGA
EST: gi|20449620|gb|BQ253744.1|BQ253744
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCA
EST: gi|213601375|gb|DB968705.1|DB968705
EST:     TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTG                         GGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA
genomic: TTGGAGGAAGGAAGGTGCTGTTCCTCCAGTCAAAGACCAAGGAGGCTGTGgtaagcaagc ... tttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttaacaaactttgcttatcttgagatttgtttaatttattttttttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGATAGTGACAGGTGAACTGATTTCGTTATCAGAACAAGAATTGGTGGATTG
                                    tttatttttttt  CT-rich tract
                ttatcttgagatttgt  TA-rich tract
















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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
agtttctggctgtgacctgagtatttttataacctataggtatttttttaacaaactttgcttatcttgagatttgtttaatttattttttttaatttagGGAGCTGTTGGGCATTCTCAGCAATCGGTGCAGTGGAAGGAATAAATAAGATAGTGACAGGTGAACTGATTTCGTTATCAGAACAAGAATTGGTGGATTG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGTGGA
- - - tggctgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgcttat