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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattggttgcaagttgcaccattttcaggccaatcaggcaacttaaattccaacttttttacattactcgtgatttaatgcaaataaaaaaataaaagaaataaaaactctgctctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAGGCTGTGAACGAATTTCTTGAGCATCAGAAGGAAAATATAACAAATTTGA

Basic information

species Glycine max
transcript GLYMA14G02220.2
intron # 10
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|192301996|gb|FG995166.1|FG995166
EST:     TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|31457278|gb|CD399306.1|CD399306
EST:     TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|31466922|gb|CD408950.1|CD408950
EST:     TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|9898860|gb|BE607828.1|BE607828
EST:     TTGAAGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTG
EST: gi|151410964|gb|EV280779.1|EV280779
EST:     TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAGTGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|31456589|gb|CD398617.1|CD398617
EST:     GGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: GGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|12773062|gb|BG237989.1|BG237989
EST:     TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|7028072|gb|AW457855.1|AW457855
EST:     TATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|31306949|gb|CD392152.1|CD392152
EST:     TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TTGAGGAACAAGGAAGGCAGCTTTATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
EST: gi|10253204|gb|BE820970.1|BE820970
EST:     TATGGAGCCAACCTATTAGAAATACAG                         GCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG
genomic: TATGGAGCCAACCTATTAGAAATACAGgtattggttg ... tctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cgtgatttaatgcaaataaaaaaataaaagaaataaaaactctgctctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAGGCTGTGAACGAATTTCTTGAGCATCAGAAGGAAAATATAACAAATTTGA
    atttaat  putative branch site (score: 4)
                                       ctctgctctctctc  putative PPT
     tttaatgcaaataaaa  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtattggttgcaagttgcaccattttcaggccaatcaggcaacttaaattccaacttttttacattactcgtgatttaatgcaaataaaaaaataaaagaaataaaaactctgctctctctcagGCAAAAATGAAACTAAATGAGCAGCAGCTGGCGACTCTGTCAAGTTCAAAGGCTGTGAACGAATTTCTTGAGCATCAGAAGGAAAATATAACAAATTTGA

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA