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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttagtagcttactcttggattttgtaattttcctttattgtgccaacaatcttcaatgccttaacatcatttacatgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAACAGGAGTTTTTCAATAACATATATGAACTAGTTGGAGTTCCTGTAGTCAC

Basic information

species Glycine max
transcript GLYMA20G37170.2
intron # 9
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|10236984|gb|BE805872.1|BE805872
EST:     AGAAAATTGTGAAAGCTGATGCTTATGTAGCTG                         CTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
genomic: AGAAAATTGTGAAAGCTGATGCTTATGTAGCTGgttagtagct ... atgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
EST: gi|254340371|gb|GR858496.1|GR858496
EST:     GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTG                         CTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
genomic: GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTGgttagtagct ... atgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
EST: gi|207747615|gb|GD717940.1|GD717940
EST:     GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTG                         CTTGTGATGTCCCTGGAATCAAGAGATTACTTCCATCAAAAGTGGAGGGAA
genomic: GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTGgttagtagct ... atgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAA-GTGGAGGGAA
EST: gi|193403381|gb|FK367703.1|FK367703
EST:     GATGCTTATGTTAGTCTG                         CTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAA
genomic: GATGCTTATG-TAG-CTGgttagtagct ... atgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAA
EST: gi|7691632|gb|AW759756.1|AW759756
EST:     GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTG                         CTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
genomic: GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTGgttagtagct ... atgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
EST: gi|298188346|gb|HO035039.1|HO035039
EST:     GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTG                         CTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC
genomic: GCTACTGCCAAGAAAATTGTGAAAGCTGATGCTTATGTAGCTGgttagtagct ... atgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcctttattgtgccaacaatcttcaatgccttaacatcatttacatgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAACAGGAGTTTTTCAATAACATATATGAACTAGTTGGAGTTCCTGTAGTCAC
                             ccttaac  putative branch site (score: 3)
                                    atcattta  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gttagtagcttactcttggattttgtaattttcctttattgtgccaacaatcttcaatgccttaacatcatttacatgatgccagCTTGTGATGTCCCTGGAATTAAGAGATTACTTCCATCAAAGTGGAGGGAACAGGAGTTTTTCAATAACATATATGAACTAGTTGGAGTTCCTGTAGTCAC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGGAG