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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ataataatgtgtttgtatatggccatattcactaaactttatagtgcagttctgttacttacagtttcctgtagtttaactgatatcttgctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG

Basic information

species Glycine max
transcript GLYMA02G15250.1
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|15204315|gb|BI427083.1|BI427083
EST:     TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATG                         CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
genomic: TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATGgttagttatg ... ctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
EST: gi|207682474|gb|GD664831.1|GD664831
EST:     TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATG                         CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
genomic: TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATGgttagttatg ... ctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
EST: gi|120496303|gb|EH224470.1|EH224470
EST:     TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATG                         CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
genomic: TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATGgttagttatg ... ctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
EST: gi|7233363|gb|AW568710.1|AW568710
EST:     TGCTGCAGTTGAAAGCTGTAAGAAGGCACTGACCTTGGAACCAAATGATG                         CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
genomic: TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATGgttagttatg ... ctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
EST: gi|57575694|gb|CX548669.1|CX548669
EST:     TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATG                         CTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
genomic: TGCTGCAGTTGAAAGCTTTAAGAAGGCACTGACCTTGGAACCAAATGATGgttagttatg ... ctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcagttctgttacttacagtttcctgtagtttaactgatatcttgctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG
                                             ctattttc  CT-rich tract
                          tagtttaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ataataatgtgtttgtatatggccatattcactaaactttatagtgcagttctgttacttacagtttcctgtagtttaactgatatcttgctattttcagCTGGAATAAAAAAGGAACTTGCTGCTGCTAGGAAGAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG