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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taaaactttgtctgtaaggttctccattgaattagaaaactacataggattggataaacatatataataataaggtgttgtgatactttgtatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGGATCCAACAGTTCACCAAGTACGTTACTGCCCTTGCAAATGATGCTGCTA

Basic information

species Glycine max
transcript GLYMA20G34670.1
intron # 6
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|192315404|gb|FK009206.1|FK009206
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|19346640|gb|BM891520.1|BM891520
EST:     CCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: CCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|12688232|gb|BG154568.1|BG154568
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTNTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|16106179|gb|BI893919.1|BI893919
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|12489945|gb|BG043457.1|BG043457
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|10234051|gb|BE802939.1|BE802939
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAGAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTG
EST: gi|16349224|gb|BI974819.1|BI974819
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|16349097|gb|BI974692.1|BI974692
EST:     CATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: CATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|151402975|gb|EV272788.1|EV272788
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|51337584|gb|CO981450.1|CO981450
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|16105375|gb|BI893115.1|BI893115
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|51341691|gb|CO983008.1|CO983008
EST:     ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG
EST: gi|13789655|gb|BG652246.1|BG652246
EST:     ATTGGGTTGGCTCCGTATTAGGCAACATTCACCCCAGCATAAGCACCTCG                         ATCAAAGAGCAAAAGTACATTTTGTTTTATGGGGGCAACGACAAAGACTGG
genomic: ATTGGGTTGGCTCCGTATTAGGCAGCATTCACCCCAGCATAAGCACCTCGgtaagtatat ... tatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aggattggataaacatatataataataaggtgttgtgatactttgtatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGGATCCAACAGTTCACCAAGTACGTTACTGCCCTTGCAAATGATGCTGCTA
     tggataaacatatata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taaaactttgtctgtaaggttctccattgaattagaaaactacataggattggataaacatatataataataaggtgttgtgatactttgtatgaagcagATCAAAGAGCAAAAGTACATTTTCTTTTATGGGGGCAACGACAAAGACTGGATCCAACAGTTCACCAAGTACGTTACTGCCCTTGCAAATGATGCTGCTA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  ATGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - -ttgtctg
- - - - - - - - - -ttctcca
- - - - - - - - - - - - - - - - - - - - - - - - - - gataaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ggtgttg