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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaagaattaaatgttgtgcttacaggtaagtattaacagttgtctggaaatatttttgggctagtgtctctttgtttcttatctgcctcattcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCACTGCCTATAAG

Basic information

species Glycine max
transcript GLYMA06G14050.2
intron # 9
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|254343884|gb|GR857640.1|GR857640
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193554375|gb|FK511348.1|FK511348
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGGCGGTGTGATCTTGGGTTC
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAG-CGGTGTGATCTTGGGTTC
EST: gi|27424740|gb|CA936260.1|CA936260
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|6481922|gb|AW201193.1|AW201193
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGGTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193442856|gb|FK404234.1|FK404234
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|21888556|gb|BQ741769.1|BQ741769
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193301047|gb|FK265554.1|FK265554
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|192319171|gb|FK009111.1|FK009111
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193423912|gb|FK390251.1|FK390251
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|9205289|gb|BE331513.1|BE331513
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193379415|gb|FK344861.1|FK344861
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGA
EST: gi|192319172|gb|FK009112.1|FK009112
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTTTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|9205272|gb|BE331496.1|BE331496
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193407747|gb|FK373109.1|FK373109
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|254324021|gb|GR840446.1|GR840446
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTTTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|207734898|gb|GD710735.1|GD710735
EST:     AGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: AGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|6481926|gb|AW201197.1|AW201197
EST:     GGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAAGTTTGCCACTG                         CCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTC
genomic: GGGGATTACCATCATTCAACTCGAATTGCATTTGTTG-AGTTTG-CACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTC
EST: gi|193422971|gb|FK389282.1|FK389282
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|193682197|gb|FK622945.1|FK622945
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|151397590|gb|EV267463.1|EV267463
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|21677144|gb|BQ629495.1|BQ629495
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|8403307|gb|BE058941.1|BE058941
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCA-TTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|15661924|gb|BI699295.1|BI699295
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
EST: gi|254343883|gb|GR857639.1|GR857639
EST:     TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTG                         GCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA
genomic: TTGGGGATTACCATCATTCAACTCGAATTGCATTTGTTGAGTTTGCACTGgtaatttctc ... attcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tggaaatatttttgggctagtgtctctttgtttcttatctgcctcattcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCACTGCCTATAAG
                      tctctttgtttcttat  CT-rich tract
     atattttt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaagaattaaatgttgtgcttacaggtaagtattaacagttgtctggaaatatttttgggctagtgtctctttgtttcttatctgcctcattcttgcagGCTGAGAGTGCAATTGCAGCTCTGAGCTGTAGCGGTGTGATCTTGGGTTCACTGCCTATAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
- - - - - - - - -tgcttac
- - - - - - - - - - - - - - - - - - - - ttgtctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gctagtg