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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...taacctttcatattgagaaggaatctgtgtcatgagtttggaaatagttccaaacttacacatttgaaaattaaaagcatgacaaagcttactaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAAAAAGGAAAATGGCTTTATCTTCAAAGAAACTTGAGAAGAATGGCCTTGA

Basic information

species Glycine max
transcript GLYMA12G14000.1
intron # 7
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|193714136|gb|FK650614.1|FK650614
EST:     GGTTTTGGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAA
genomic: GGTTTT-GCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAA
EST: gi|193676915|gb|FK618709.1|FK618709
EST:     TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGC
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGC
EST: gi|208259566|gb|GE058420.1|GE058420
EST:     TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGG
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGG
EST: gi|193471126|gb|FK436003.1|FK436003
EST:     TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGA
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGA
EST: gi|298193864|gb|HO040512.1|HO040512
EST:     TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAA
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAA
EST: gi|193578161|gb|FK533363.1|FK533363
EST:     TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAG
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAG
EST: gi|193732351|gb|FK668775.1|FK668775
EST:     TGG-TTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAG
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAG
EST: gi|193584547|gb|FK543327.1|FK543327
EST:     TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATG                         CTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGC
genomic: TGGTTTTGCAACTCTTAAGTCTCAGGGTGATTATGACAATGATGAAAATGgtaacattta ... actaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

agttccaaacttacacatttgaaaattaaaagcatgacaaagcttactaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAAAAAGGAAAATGGCTTTATCTTCAAAGAAACTTGAGAAGAATGGCCTTGA
                                            tactaat  putative branch site (score: 1)
          ttacacatttgaaaat  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
taacctttcatattgagaaggaatctgtgtcatgagtttggaaatagttccaaacttacacatttgaaaattaaaagcatgacaaagcttactaatgcagCTGGAAGCACTGATGATGAAGAGGAAGAAGCAATCGATAGGAGTAGAGCAAAAAGGAAAATGGCTTTATCTTCAAAGAAACTTGAGAAGAATGGCCTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- -cctttca
- - - - - - - - - - - atctgtg
- - - - - - - - - - - - - - -tcatgag
- - - - - - - - - - - - - - - - - - - - - - - - -ccaaact
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatgac