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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttcaataattttacagggaaattaatagcaggtagatacttcctgaaagactgatgttgaaatctagtttatctattttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTCCTTTGTGCCGCTGCACTTGTTGCCTTGCAGGAAAATGTTGGGAAGCTGG

Basic information

species Glycine max
transcript GLYMA10G30880.3
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|254320848|gb|GR827297.1|GR827297
EST:     GTGCTCCAGTTGGATCTGTTATTGTTGGTT-CAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|14990470|gb|BI316143.1|BI316143
EST:     GTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: GTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|207729253|gb|GD709109.1|GD709109
EST:     TCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: TCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|254336691|gb|GR842870.1|GR842870
EST:     GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|22523739|gb|BU082550.1|BU082550
EST:     GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|254336692|gb|GR842871.1|GR842871
EST:     TATTGTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: TATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|14258404|gb|BG881312.1|BG881312
EST:     GCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: GCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
EST: gi|21993634|gb|BQ785162.1|BQ785162
EST:     GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAG                         GCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC
genomic: GTGCTCCAGTTGGATCTGTTATTGTTGGTTCCAAGAATTTTATTGCCAAGgtagttcaat ... ttttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ggtagatacttcctgaaagactgatgttgaaatctagtttatctattttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTCCTTTGTGCCGCTGCACTTGTTGCCTTGCAGGAAAATGTTGGGAAGCTGG
                  gactgat  putative branch site (score: 3)
                                     tttatctatttttttt  putative PPT
                          ttgaaatctagtttat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtagttcaataattttacagggaaattaatagcaggtagatacttcctgaaagactgatgttgaaatctagtttatctattttttttagGCTAGACGACTCCGGAAAACCTTAGGAGGTGGAATGAGACAGATTGGCCTCCTTTGTGCCGCTGCACTTGTTGCCTTGCAGGAAAATGTTGGGAAGCTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG