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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tttttgctaccctatattctgtattcttgttgtacctagacattgtagtgaatgttaaggacaaggatgggctgatgctgttatttgttcatttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTGGATGGCTTATTAAGGGTTCATAAGCGGATTATTGATGGTTTAGAGAGTG

Basic information

species Glycine max
transcript GLYMA19G43540.1
intron # 2
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|208281013|gb|GE077235.1|GE077235
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|207838810|gb|GD811690.1|GD811690
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|209717840|gb|BW668977.1|BW668977
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAGCTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|207756052|gb|GD729975.1|GD729975
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|193463106|gb|FK429551.1|FK429551
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|208067539|gb|GD865627.1|GD865627
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|193423140|gb|FK391019.1|FK391019
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|193481220|gb|FK447767.1|FK447767
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGGGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|208292100|gb|GE093362.1|GE093362
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|151404617|gb|EV274431.1|EV274431
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|209699674|gb|BW655740.1|BW655740
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|207766975|gb|GD736937.1|GD736937
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|208130231|gb|GD928088.1|GD928088
EST:     GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: GAGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
EST: gi|193622422|gb|FK568188.1|FK568188
EST:     AGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCT                         GTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG
genomic: AGCTCGCGTTAAAATTCTTGATGGTCCTCCCGGAACTGTGCAAAGGGCTgtaagtttct ... atttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tagtgaatgttaaggacaaggatgggctgatgctgttatttgttcatttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTGGATGGCTTATTAAGGGTTCATAAGCGGATTATTGATGGTTTAGAGAGTG
                        ggctgat  putative branch site (score: 4)
                                          ttcattt  putative PPT
                                   ttatttgttcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tttttgctaccctatattctgtattcttgttgtacctagacattgtagtgaatgttaaggacaaggatgggctgatgctgttatttgttcatttggttagGTAATGATATCAGCTAAAGAGGAACCTGGTTCCTCTGTTCCTCCTGCTGTGGATGGCTTATTAAGGGTTCATAAGCGGATTATTGATGGTTTAGAGAGTG

- - tgctacc
- - - - - - - - ttctgta
- - - - - - - - - - - - -cttgttg
- - - - - - - - - - - - - - - - - - - - - -tgtagtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggatggg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgatgc