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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattagtttttgttgaaatgaatattattattaatgatagggttcatttgtgtgtgttgtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAATCCTAATAAGCTGAAGGTTATGGGGGGGTTTGGAGGTTGTTCTGGAGTGG

Basic information

species Glycine max
transcript GLYMA20G39340.1
intron # 1
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|213610962|gb|DB970889.1|DB970889
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAACAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|192300965|gb|FG993025.1|FG993025
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|192312058|gb|FK003849.1|FK003849
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|209726968|gb|BW675370.1|BW675370
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|151403534|gb|EV273344.1|EV273344
EST:     CGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|254337627|gb|GR849473.1|GR849473
EST:     GTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: GTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|151411656|gb|EV281467.1|EV281467
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|151412120|gb|EV281932.1|EV281932
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACGCTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|213596285|gb|DB961985.1|DB961985
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|213614514|gb|DB969119.1|DB969119
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|213617169|gb|DB971288.1|DB971288
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|213602160|gb|DB962653.1|DB962653
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|20449160|gb|BQ253284.1|BQ253284
EST:     CATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|151407379|gb|EV277194.1|EV277194
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|298179612|gb|HO024827.1|HO024827
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         CCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|209696481|gb|BW672823.1|BW672823
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|193653535|gb|FK599533.1|FK599533
EST:     GTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTAGCAGCTGCGTAAGTGTAACCCTAA
genomic: GTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTT-GCAGCTGCGTAAGTGTAACCCTAA
EST: gi|209714759|gb|BW654109.1|BW654109
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|213611995|gb|DB958949.1|DB958949
EST:     TTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: TTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|192298399|gb|FG989150.1|FG989150
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|213617304|gb|DB972914.1|DB972914
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|26268893|gb|CA819956.1|CA819956
EST:     ATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: ATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|192312057|gb|FK003848.1|FK003848
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|37995911|gb|CF807500.1|CF807500
EST:     CGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|209705903|gb|BW676008.1|BW676008
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
EST: gi|209727741|gb|BW658661.1|BW658661
EST:     CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTG                         TCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT
genomic: CCGTGACCATGGCGGCTGCGTTTACAAGTACAAGTGCAACACTGAGACTGgtaattagtt ... gtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tgaaatgaatattattattaatgatagggttcatttgtgtgtgttgtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAATCCTAATAAGCTGAAGGTTATGGGGGGGTTTGGAGGTTGTTCTGGAGTGG
               tattaat  putative branch site (score: 2)
     tgaatattattattaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaattagtttttgttgaaatgaatattattattaatgatagggttcatttgtgtgtgttgtgttggcagTCAAATGTTGGAGAGAGCAGAGGTTTGCAGCTGCGTAAGTGTAACCCTAATCCTAATAAGCTGAAGGTTATGGGGGGGTTTGGAGGTTGTTCTGGAGTGG

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  TTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG