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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatgtattacaattttcatatgaaggtgcgctataattttaataggtagctgctatttttcacaattaaatatgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTTAACTTGGAG

Basic information

species Glycine max
transcript GLYMA20G33350.1
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|209727673|gb|BW658410.1|BW658410
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|57575832|gb|CX548803.1|CX548803
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|254315619|gb|GR825428.1|GR825428
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|9440171|gb|BE440681.1|BE440681
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTNT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|254315620|gb|GR825429.1|GR825429
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|58025303|gb|CX712044.1|CX712044
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|209697796|gb|BW670063.1|BW670063
EST:     GAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: GAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
EST: gi|58017943|gb|CX704685.1|CX704685
EST:     TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAG                         GAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT
genomic: TTGGAGGCGAGATAGAAGAAATAAATAATACTCATGCTGAGTTGACCAAGgtatgtatta ... tgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gcgctataattttaataggtagctgctatttttcacaattaaatatgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTTAACTTGGAG
         ttttaat  putative branch site (score: 3)
                          tatttttcacaattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtatgtattacaattttcatatgaaggtgcgctataattttaataggtagctgctatttttcacaattaaatatgtatttcagGAACTCCAGTCAGTCCAGGGACAACTTGTGGCTGAGAGATCAAGATGCTTTAACTTGGAG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG