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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tatttgtgtttttttttttccatgtaagagtataaaaattagacggtttcgtttgttaaagaatgtgtggttgttttgtgatgattatttcacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATATATGAACGAATTGAAAGCCTTGCAAAGATGCATCGGATCACTCCTGCTC

Basic information

species Glycine max
transcript GLYMA03G40870.1
intron # 5
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|7639190|gb|AW733518.1|AW733518
EST:     AAGTAGCTCCCTG                         AAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
genomic: AAGTAGCTCCCTGgtatatagca ... cacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
EST: gi|20812683|gb|BQ297161.1|BQ297161
EST:     TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTG                         AAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
genomic: TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTGgtatatagca ... cacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
EST: gi|20812930|gb|BQ297408.1|BQ297408
EST:     TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTG                         AAAGTACATCCACGCTTTCAAGCCTATAACATGGACAAGAACAAGAATATA
genomic: TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTGgtatatagca ... cacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
EST: gi|151407626|gb|EV277441.1|EV277441
EST:     TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTG                         AAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
genomic: TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTGgtatatagca ... cacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
EST: gi|26269337|gb|CA820400.1|CA820400
EST:     TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTG                         AAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
genomic: TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTGgtatatagca ... cacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
EST: gi|13251832|gb|BG362735.1|BG362735
EST:     TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTG                         AAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA
genomic: TCTTTGGCGGCAAAGGAATTCTGGAAAATGTGTCTGCAAGTAGCTCCCTGgtatatagca ... cacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtttcgtttgttaaagaatgtgtggttgttttgtgatgattatttcacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATATATGAACGAATTGAAAGCCTTGCAAAGATGCATCGGATCACTCCTGCTC
                                          tttcactt  CT-rich tract
                                      attatttcacttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tatttgtgtttttttttttccatgtaagagtataaaaattagacggtttcgtttgttaaagaatgtgtggttgttttgtgatgattatttcacttatcagAAAGTACATCCACGCTTTCAAGCCGAGAACATGGACAAGAACAAGAATATATATGAACGAATTGAAAGCCTTGCAAAGATGCATCGGATCACTCCTGCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG
- tttgtgt
- - - - - - - - - -ccatgta
- - - - - - - - - - - - - - - -ataaaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtggttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgat