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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgctaaatagggttgacatgctgtttacttgttaatttatttccttcatgaaatgtcatttttacataattgtctgctctatggaacaaaataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAGGGATTGGACGAAGAAGACGATGACGAGCATGGGGAGACCTTGTGTGGAG

Basic information

species Glycine max
transcript GLYMA09G07970.1
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|298191570|gb|HO039049.1|HO039049
EST:     AGAAGTCATCAGGGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTAT
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTAT
EST: gi|151412383|gb|EV282195.1|EV282195
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
EST: gi|192323928|gb|FK018649.1|FK018649
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGGA
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGG-A
EST: gi|192299703|gb|FG990027.1|FG990027
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
EST: gi|192327024|gb|FK015206.1|FK015206
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
EST: gi|12689413|gb|BG155810.1|BG155810
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAA
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAA
EST: gi|208271013|gb|GE069937.1|GE069937
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
EST: gi|151401139|gb|EV270953.1|EV270953
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGACCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
EST: gi|151411128|gb|EV280939.1|EV280939
EST:     AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGG                         CGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG
genomic: AGAAGTCATCAGAGAACAATGGCAACAAATCAAAGTCCAGTTCAAAAGGGgtaagaaaaa ... ataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatgaaatgtcatttttacataattgtctgctctatggaacaaaataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAGGGATTGGACGAAGAAGACGATGACGAGCATGGGGAGACCTTGTGTGGAG
     aaatgtcatttttaca  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
tgctaaatagggttgacatgctgtttacttgttaatttatttccttcatgaaatgtcatttttacataattgtctgctctatggaacaaaataaaaatagCGAGGATCTGAACCCCCAAAGTATTCAAAGCAAGTGAAGGATGAGGAGGAGGGATTGGACGAAGAAGACGATGACGAGCATGGGGAGACCTTGTGTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - -acatgct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctgctct
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - ggaacaaa