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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttctgattattttgaatgatgactattgtctattgctttatgtatttcataattaatacattgtttcttactatatctttgtcattttgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCCATGATGAAGAAGAGAAGCTGTTTGAATTCAAAACAGATGAGG

Basic information

species Glycine max
transcript GLYMA08G46090.2
intron # 6
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|193571590|gb|FK532821.1|FK532821
EST:     GGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|208169641|gb|GD973034.1|GD973034
EST:     GGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|208245349|gb|GE041673.1|GE041673
EST:     GGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|193609033|gb|FK561617.1|FK561617
EST:     GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGC-TTTTTGAAAAAGGGCC
genomic: GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|193623338|gb|FK577796.1|FK577796
EST:     GAAGGGAGGGGAAGGATATGGGCGTCCAAATGAGGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAA-GGGCC
genomic: GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|207686419|gb|GD669219.1|GD669219
EST:     CCATTGTT-AAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTTGAAAAAAGGG
genomic: CCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCC-TTTTTG-AAAAAGGG
EST: gi|193648342|gb|FK595339.1|FK595339
EST:     GGGGGCCGATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGGCC-ATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|193514593|gb|FK471903.1|FK471903
EST:     GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|193390749|gb|FK355507.1|FK355507
EST:     GGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCC-TTTTGAAAAAGGGCC
genomic: GGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|208134532|gb|GD930925.1|GD930925
EST:     GGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|208131191|gb|GD931078.1|GD931078
EST:     GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|193698977|gb|FK635022.1|FK635022
EST:     GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|207781046|gb|GD753653.1|GD753653
EST:     GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GAAGGAAGGGGAAGGATATGAGCGTCCAAATGAGGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|207704899|gb|GD685560.1|GD685560
EST:     GGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGT
genomic: GGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGT
EST: gi|208155862|gb|GD954450.1|GD954450
EST:     GGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC
EST: gi|207750327|gb|GD722040.1|GD722040
EST:     GGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTTGAAAAAAGGG
genomic: GGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTT-GAAAAA-GGG
EST: gi|193645270|gb|FK587900.1|FK587900
EST:     GGGGGCCATTGTTAAAG                         TGAAACTAATTGGTAAGCTACGAGATGGTGCTGCCTTTTTGAAAAAGGGCC
genomic: GGGGGCCATTGTTAAAGgtaatttctg ... tgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatttcataattaatacattgtttcttactatatctttgtcattttgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCCATGATGAAGAAGAGAAGCTGTTTGAATTCAAAACAGATGAGG
                      ttcttac  putative branch site (score: 2)
                                       tcatttt  putative PPT
      ataattaatacattgt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaatttctgattattttgaatgatgactattgtctattgctttatgtatttcataattaatacattgtttcttactatatctttgtcattttgtgtcttagTGAAACTAATTGGTAAGCTACAAGATGGTGCTGCCTTTTTGAAAAAGGGCCATGATGAAGAAGAGAAGCTGTTTGAATTCAAAACAGATGAGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG