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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgttttttgctttatgctttctcatcctccccattctccattctaacaacaatcatttccttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTTAATT

Basic information

species Glycine max
transcript GLYMA20G39340.2
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|193681454|gb|FK624506.1|FK624506
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|208219392|gb|GE020182.1|GE020182
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|193308516|gb|FK276961.1|FK276961
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|213611995|gb|DB958949.1|DB958949
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|151399950|gb|EV269821.1|EV269821
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|193421466|gb|FK389625.1|FK389625
EST:     CAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: CAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|21678092|gb|BQ630443.1|BQ630443
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|151403840|gb|EV273650.1|EV273650
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|254337627|gb|GR849473.1|GR849473
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|9899901|gb|BE608869.1|BE608869
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|209714759|gb|BW654109.1|BW654109
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|31473399|gb|CD415412.1|CD415412
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|209706050|gb|BW653379.1|BW653379
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|23052950|gb|BU577441.1|BU577441
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|16284153|gb|BI945934.1|BI945934
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTNTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|151403534|gb|EV273344.1|EV273344
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|26268893|gb|CA819956.1|CA819956
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|192300966|gb|FG993026.1|FG993026
EST:     GTGTCATCAAGAATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|16342966|gb|BI968561.1|BI968561
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACNNNGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|20449160|gb|BQ253284.1|BQ253284
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAAGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|37995911|gb|CF807500.1|CF807500
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|209706049|gb|BW653378.1|BW653378
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|209705904|gb|BW676009.1|BW676009
EST:     TCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: TCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|209726969|gb|BW675371.1|BW675371
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|151407379|gb|EV277194.1|EV277194
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|193452050|gb|FK418456.1|FK418456
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|208198867|gb|GE000327.1|GE000327
EST:     TGTCATCAAGGATTTCATGATTCAAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTNTATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: TGTCATCAAGGATTTCATGATTCAA-GGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|17153970|gb|BM143903.1|BM143903
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|193361333|gb|FK328651.1|FK328651
EST:     CAAGGAGGTAGTACTTTTGTACAAAGG-AAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: CAAGGAGG-AG-AC-TTTG-ACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|214008657|gb|DB988234.1|DB988234
EST:     GATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTTAAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|192293856|gb|FG986065.1|FG986065
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|207827927|gb|GD798742.1|GD798742
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|16282175|gb|BI944876.1|BI944876
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|151411656|gb|EV281467.1|EV281467
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|21889679|gb|BQ742892.1|BQ742892
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|31470145|gb|CD412173.1|CD412173
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|9899908|gb|BE608876.1|BE608876
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
EST: gi|16281004|gb|BI944264.1|BI944264
EST:     GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAAT                         GGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT
genomic: GTGTCATCAAGGATTTCATGATTCAAGGAGGAGACTTTGACAAAGGAAATgtatgttttt ... ttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gctttctcatcctccccattctccattctaacaacaatcatttccttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTTAATT
                         ttctaac  putative branch site (score: 1)
                                     tcatttccttcctcgc  putative PPT
                                   aatcattt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgttttttgctttatgctttctcatcctccccattctccattctaacaacaatcatttccttcctcgcagGGAACTGGAGGCAAAAGTATATATGGTCGTACTTTCAAAGATGAGAATTTTAATT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG