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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...gtagagagatatagagaggggtttcaagtggtgttaaaaactagatatgaaaattataaatgagaaatatcttactctgagtctgtgccctcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATGATCCAGCCATTCTACCACGATCTGATTTGTCCAGGCAGCAATACATGAA

Basic information

species Glycine max
transcript GLYMA12G02920.2
intron # 3
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|209698483|gb|BW667280.1|BW667280
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
EST: gi|193429874|gb|FK395536.1|FK395536
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGG
EST: gi|193419575|gb|FK383211.1|FK383211
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
EST: gi|193408566|gb|FK374124.1|FK374124
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCAAT
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCA-T
EST: gi|193393928|gb|FK358507.1|FK358507
EST:     TTGGTAGTTGTTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
genomic: TTGG-AGTTG-TGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
EST: gi|193414153|gb|FK377853.1|FK377853
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGACACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTG-CACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGG
EST: gi|58022079|gb|CX708820.1|CX708820
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
EST: gi|7326570|gb|AW620368.1|AW620368
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATG
EST: gi|193436738|gb|FK400883.1|FK400883
EST:     ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAG                         GAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGG
genomic: ATTTGGAGTTGTGCAAGATGCTGATCGACTTGATGCTATTGGTGCTATAGgtattttctc ... tcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatgaaaattataaatgagaaatatcttactctgagtctgtgccctcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATGATCCAGCCATTCTACCACGATCTGATTTGTCCAGGCAGCAATACATGAA
                       atcttac  putative branch site (score: 3)
                                        tgccctc  putative PPT
     aaattataaatgagaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagagagatatagagaggggtttcaagtggtgttaaaaactagatatgaaaattataaatgagaaatatcttactctgagtctgtgccctcaatatcagGAATTGCACGTTGTTTCACCTTTGGTGGGAGTAGGAAGAGGTTGCTGCATGATCCAGCCATTCTACCACGATCTGATTTGTCCAGGCAGCAATACATGAA

- - - - - - - agagggg
- - - - - - - - - - - - - agtggtg
- - - - - - - - - - - - - - - - - taaaaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgtgc