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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...aaaatgatatttgacctgttttttctagtgcatataatataaatgatagggattctttggatttatcattttattgtattgtgatggtttttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACATTATTAATGGTCTTCTTGAAAGAG

Basic information

species Glycine max
transcript GLYMA11G16220.1
intron # 4
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|193569511|gb|FK523126.1|FK523126
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAAACGAAAATCAATGACGAAGGGA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAA-CGAAAATCAATGACGAAGGGA
EST: gi|298170350|gb|HO018974.1|HO018974
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|151395074|gb|EV264945.1|EV264945
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|151393509|gb|EV263384.1|EV263384
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|193692225|gb|FK631096.1|FK631096
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|192300022|gb|FG991840.1|FG991840
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|298189266|gb|HO037669.1|HO037669
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|298196849|gb|HO041592.1|HO041592
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|192296626|gb|FG991194.1|FG991194
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|298177939|gb|HO023788.1|HO023788
EST:     GGGATTTGGTGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|208140882|gb|GD935686.1|GD935686
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGAC
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGAC
EST: gi|192314382|gb|FK008058.1|FK008058
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|192314383|gb|FK008059.1|FK008059
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACA
EST: gi|193567955|gb|FK524292.1|FK524292
EST:     GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCG                         ATGGCTTAGGAACGAAAATCAATGACGAAGGGA
genomic: GGGATTTGATGCTTATAGATTTTCAATTTCTTGGTCTCGGATTTTCCCCGgtatgtttta ... ttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atagggattctttggatttatcattttattgtattgtgatggtttttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACATTATTAATGGTCTTCTTGAAAGAG
                                          ttttt  CT-rich tract
               atttatcattttattg  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
aaaatgatatttgacctgttttttctagtgcatataatataaatgatagggattctttggatttatcattttattgtattgtgatggtttttgggtatagATGGCTTAGGAACGAAAATCAATGACGAAGGGATAACTTTTTATAACAACATTATTAATGGTCTTCTTGAAAGAG

- - - - - -tgacctg
- - - - - - - - - - - - - - tgcatat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gtgatgg