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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgaataagttatttattgtttatactttatatagtggtcatgttgatttcctgagttagtttttaaattgaaattgctaattttcttatatttatttctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCAAAG

Basic information

species Glycine max
transcript GLYMA16G08460.2
intron # 12
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|19348065|gb|BM892597.1|BM892597
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|19453158|gb|BM954568.1|BM954568
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|15203110|gb|BI425878.1|BI425878
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|14990386|gb|BI316059.1|BI316059
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|19053118|gb|BM731785.1|BM731785
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|6566798|gb|AW234430.1|AW234430
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|6341574|gb|AW164398.1|AW164398
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCGAAGCAG                         ACGAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|298199413|gb|HO042776.1|HO042776
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGAAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|19453207|gb|BM954617.1|BM954617
EST:     GGCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GGCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
EST: gi|208341298|gb|GE138994.1|GE138994
EST:     GCTGGAACTGGAATAGCNGAACTA-TAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTAC
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACT-C
EST: gi|7326720|gb|AW620518.1|AW620518
EST:     GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAG                         ACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA
genomic: GCTGGAACTGGAATAGCAGAACTAATAGCTCTTGAGATGTCAAAGCAGgtgaataagt ... tctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgagttagtttttaaattgaaattgctaattttcttatatttatttctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCAAAG
                       tgctaat  putative branch site (score: 2)
                                       tttatttctc  putative PPT
        tttttaaattgaaatt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtgaataagttatttattgtttatactttatatagtggtcatgttgatttcctgagttagtttttaaattgaaattgctaattttcttatatttatttctcgtgcagACAAAGACACCTATAGAGGAGACTCGCAAGAAGATATGGCTTGTAGACTCAAAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG