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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatatgatattgattgttacctcctgaacttggaacttgatgtaaggtttgtgcgaagttgaatggatgaacaattctttatcctcgccttgtctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGTCAAAAGTGCCATGGATGCTTCATATGGTGATATGTCAAATGATTCTGCT

Basic information

species Glycine max
transcript GLYMA02G05670.2
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|193444184|gb|FK406612.1|FK406612
EST:     GGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: GGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
EST: gi|209716206|gb|BW654254.1|BW654254
EST:     TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
EST: gi|207768906|gb|GD741039.1|GD741039
EST:     TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
EST: gi|213611913|gb|DB958923.1|DB958923
EST:     TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
EST: gi|193712022|gb|FK643473.1|FK643473
EST:     TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
EST: gi|208271204|gb|GE068294.1|GE068294
EST:     GGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: GGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
EST: gi|193410767|gb|FK378910.1|FK378910
EST:     TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAG                         AACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT
genomic: TCTGTGGCTGGGAGAAATAAACAAGGGATAGCATTTCGTCAAGTGGAAAGgtatatgata ... ctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtgcgaagttgaatggatgaacaattctttatcctcgccttgtctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGTCAAAAGTGCCATGGATGCTTCATATGGTGATATGTCAAATGATTCTGCT
                          ttctttatcctcgcct  CT-rich tract
 aattctttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatatgatattgattgttacctcctgaacttggaacttgatgtaaggtttgtgcgaagttgaatggatgaacaattctttatcctcgccttgtctctttacagAACGAGTTTTTTGTCTCCTATATTAAAATGCAATAGACAACTTCAGTTGGTCAAAAGTGCCATGGATGCTTCATATGGTGATATGTCAAATGATTCTGCT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA