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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaaattatcatttatcacatcacctactaggaatttagaagaaactcagtataaatgctaaaagaggaagtaaaatgatatgaagataaaaaattagatgatctaaaacgaagcataaagcaccattcatagtttatgatttatttttgtcaagttgtgctacttatgctgatatgaattttttctttcatagGTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGTCCGCGGAGAATCAAAGTTTTCAGACCACAGACCTGTTTATGGCATATTT

Basic information

species Glycine max
transcript GLYMA20G28680.1
intron # 9
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|26047161|gb|CA784038.1|CA784038
EST:     TATGCTGGAGATGATATGCACCCCAAAGAGAAAAGGAGAACTCCAGCTTG                         GTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGT
genomic: TATGCTGGAGATGATATGCACCCCAAAGAGAAAAGGAGAACTCCAGCTTGgtaaaattat ... tctttcatagGTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGT
EST: gi|193375791|gb|FK340504.1|FK340504
EST:     TATGCTGGAGATGATATGCACCCCAAAGAGAAAAGGAGAACTCCAGCTTG                         GTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGT
genomic: TATGCTGGAGATGATATGCACCCCAAAGAGAAAAGGAGAACTCCAGCTTGgtaaaattat ... tctttcatagGTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttatttttgtcaagttgtgctacttatgctgatatgaattttttctttcatagGTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGTCCGCGGAGAATCAAAGTTTTCAGACCACAGACCTGTTTATGGCATATTT
                            tgctgat  putative branch site (score: 3)
                                        ttttttctttcat  putative PPT
                                 atatgaattttttctt  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 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaaaattatcatttatcacatcacctactaggaatttagaagaaactcagtataaatgctaaaagaggaagtaaaatgatatgaagataaaaaattagatgatctaaaacgaagcataaagcaccattcatagtttatgatttatttttgtcaagttgtgctacttatgctgatatgaattttttctttcatagGTGTGACCGAATTTTGTGGTACGGAGAAGGTCTCCATCAGTTATCATATGTCCGCGGAGAATCAAAGTTTTCAGACCACAGACCTGTTTATGGCATATTT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA