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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tattttctagctatttttctttctttgttctgtggtcctgccaacccaacatcagtatctatgatttgtctggttaattaaatacgtcctcttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCATAGGTAGGTTATGTACCCATTTAGCTGATGGTATTTGGGTTTTACTTTTC

Basic information

species Glycine max
transcript GLYMA08G12220.5
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|209698245|gb|BW667548.1|BW667548
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
EST: gi|208261342|gb|GE058250.1|GE058250
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGT
EST: gi|26268990|gb|CA820053.1|CA820053
EST:     TGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
EST: gi|21677259|gb|BQ629610.1|BQ629610
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
EST: gi|193352292|gb|FK314266.1|FK314266
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTACCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
EST: gi|207782545|gb|GD754998.1|GD754998
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAAGGTGAACAATGC
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGA-GGTGA-CAATGC
EST: gi|208138600|gb|GD940734.1|GD940734
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATT
EST: gi|163921292|gb|EH039740.1|EH039740
EST:     TCTGGGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
EST: gi|10237538|gb|BE806426.1|BE806426
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAACGTGGATTCTGCCAGACCTGCTGGAGGTGACAATGCA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCA
EST: gi|208046657|gb|GD849493.1|GD849493
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTAGGAAGGTGAACAAAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCT-GGA-GGTGA-CAA-T
EST: gi|193369370|gb|FK336632.1|FK336632
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAA
EST: gi|31305638|gb|CD390841.1|CD390841
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
EST: gi|193487227|gb|FK451802.1|FK451802
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAAGGTGGATTCTGCCCGAGCTGCTGGAGGTGA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGA
EST: gi|193514556|gb|FK467988.1|FK467988
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAG
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAG
EST: gi|208171604|gb|GD967143.1|GD967143
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCA
EST: gi|207797356|gb|GD769880.1|GD769880
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCA
EST: gi|193401174|gb|FK370145.1|FK370145
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGATGGAG                         CAGAGGAACAAAA
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAA
EST: gi|208281621|gb|GE073769.1|GE073769
EST:     TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAG                         CTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT
genomic: TCTGAGGGACAATCTCACCCTGTGGACTTCTGACATCCCTGAAGAAGGAGgtattcatta ... cttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccaacatcagtatctatgatttgtctggttaattaaatacgtcctcttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCATAGGTAGGTTATGTACCCATTTAGCTGATGGTATTTGGGTTTTACTTTTC
                          ggttaat  putative branch site (score: 4)
                                       cgtcctctttt  putative PPT
                         tggttaattaaata  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tattttctagctatttttctttctttgttctgtggtcctgccaacccaacatcagtatctatgatttgtctggttaattaaatacgtcctcttttaacagCTGAGGAACAAAAGGTGGATTCTGCCAGAGCTGCTGGAGGTGACAATGCATAGGTAGGTTATGTACCCATTTAGCTGATGGTATTTGGGTTTTACTTTTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGAT