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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ggttagctgatttgatatattgcagctattttgctcagttattcacatgtagatgctcataattactttatttgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATTTATGGCCGCCATGAAGGGATACAAGATGGTTTTGACCATGCCCTCTTAC

Basic information

species Glycine max
transcript GLYMA18G46920.1
intron # 3
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|5509165|gb|AI855723.1|AI855723
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGTAAA                         GACAACTCTGATTGAGCTCACGTCAGGCAATATGGGTATCAGCATGGCATC
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|19934980|gb|BQ080010.1|BQ080010
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|5666579|gb|AI930615.1|AI930615
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGAAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|23057365|gb|BU578039.1|BU578039
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|24135413|gb|BU925923.1|BU925923
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|193376674|gb|FK340869.1|FK340869
EST:     TGTGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACG
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACG
EST: gi|151411297|gb|EV281108.1|EV281108
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|16347438|gb|BI973033.1|BI973033
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|37995283|gb|CF806872.1|CF806872
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|193433978|gb|FK400130.1|FK400130
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTAT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTAT
EST: gi|10846291|gb|BF069214.1|BF069214
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|24136878|gb|BU927388.1|BU927388
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|19934921|gb|BQ079951.1|BQ079951
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|8283295|gb|BE020856.1|BE020856
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAGA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|193358504|gb|FK326600.1|FK326600
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|17519084|gb|BM188126.1|BM188126
EST:     TGATAACTCCTGNGAAA                         GACAACTTTGATAGAGCCTACATCAGGCAATATGGGTATCAGCATGGCAT
genomic: TGATAACTCCTG-GAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCAT
EST: gi|208329761|gb|GE130586.1|GE130586
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTA
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTA
EST: gi|10843246|gb|BF066554.1|BF066554
EST:     AATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: AATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|33390493|gb|CA853688.1|CA853688
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTTTGATAGAGCCTACATCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|192296965|gb|FG990281.1|FG990281
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
EST: gi|17021920|gb|BM092954.1|BM092954
EST:     TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAA                         GACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT
genomic: TATGCAATGATCACAGATGCTGAGGAAAAGAATCTGATAACTCCTGGAAAggttagctga ... tgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

attttgctcagttattcacatgtagatgctcataattactttatttgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATTTATGGCCGCCATGAAGGGATACAAGATGGTTTTGACCATGCCCTCTTAC
                                          atttgat  putative branch site (score: 5)
                                      ctttattt  CT-rich tract
                               ataattactttatttg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ggttagctgatttgatatattgcagctattttgctcagttattcacatgtagatgctcataattactttatttgatgttgcaGACAACTCTGATTGAGCCCACGTCAGGCAATATGGGTATCAGCATGGCATTTATGGCCGCCATGAAGGGATACAAGATGGTTTTGACCATGCCCTCTTAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGATG