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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttaatttggtgactaagattgtccaatgcgatgattggtgcaactttagatgataggtcgttgtttttcattactgatgatcgatttggttatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCTGCTTGGTATAAGGAGAAAGTCTACCCTGAAAACAAG

Basic information

species Glycine max
transcript GLYMA19G36080.2
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|298171848|gb|HO021440.1|HO021440
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|298186201|gb|HO036834.1|HO036834
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAAGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|19270375|gb|BM886631.1|BM886631
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|19270064|gb|BM886320.1|BM886320
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|213594334|gb|DB969984.1|DB969984
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|208133633|gb|GD929522.1|GD929522
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGG
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGG
EST: gi|213590581|gb|DB973326.1|DB973326
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|13252020|gb|BG362914.1|BG362914
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|208268036|gb|GE070739.1|GE070739
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGG
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGG
EST: gi|193389371|gb|FK353976.1|FK353976
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|213600537|gb|DB960085.1|DB960085
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|209727125|gb|BW663267.1|BW663267
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|9204038|gb|BE330262.1|BE330262
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|209701114|gb|BW652642.1|BW652642
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|207823570|gb|GD794147.1|GD794147
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|193329622|gb|FK293626.1|FK293626
EST:     CAGCGTGTTTGGTATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: CAGCGTGTTTGG-ATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|19452928|gb|BM954338.1|BM954338
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|19934788|gb|BQ079818.1|BQ079818
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
EST: gi|298180090|gb|HO025305.1|HO025305
EST:     GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAG                         GGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT
genomic: GTTATATTTGTCCCTATGCGCAGCGTGTTTGGATCACTCGGAACTATAAGgttgtttctg ... tatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttagatgataggtcgttgtttttcattactgatgatcgatttggttatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCTGCTTGGTATAAGGAGAAAGTCTACCCTGAAAACAAG
                          tactgat  putative branch site (score: 2)
                  tttttcatta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ttaatttggtgactaagattgtccaatgcgatgattggtgcaactttagatgataggtcgttgtttttcattactgatgatcgatttggttatactgcagGGACTACAAGACAAGATCAAACTGGTTCCTATTGACCTACAAAACAGGCCTGCTTGGTATAAGGAGAAAGTCTACCCTGAAAACAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA